2188
361
2
http://edamontology.org/operation_0345
Sequence retrieval (by keyword)
'Sequence retrieval (by keyword)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence retrieval (by keyword)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0346
Sequence similarity search
'Sequence similarity search' SubClassOf 'Database search'
'Sequence similarity search' SubClassOf 'Structure database search'
'Sequence similarity search' SubClassOf 'Sequence database search'
http://edamontology.org/operation_0343
Transmembrane protein database search
'Transmembrane protein database search' SubClassOf 'Obsolete concept (EDAM)'
'Transmembrane protein database search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0344
Sequence retrieval (by code)
'Sequence retrieval (by code)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence retrieval (by code)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0347
Sequence database search (by motif or pattern)
'Sequence database search (by motif or pattern)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by motif or pattern)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0348
Sequence database search (by amino acid composition)
'Sequence database search (by amino acid composition)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by amino acid composition)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0341
Motif database search
'Motif database search' SubClassOf 'Obsolete concept (EDAM)'
'Motif database search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0342
Sequence profile database search
'Sequence profile database search' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profile database search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0340
Protein secondary database search
'Protein secondary database search' SubClassOf 'Obsolete concept (EDAM)'
'Protein secondary database search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2308
Virus annotation (taxonomy)
'Virus annotation (taxonomy)' SubClassOf 'Obsolete concept (EDAM)'
'Virus annotation (taxonomy)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0356
Sequence database search (by isoelectric point)
'Sequence database search (by isoelectric point)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by isoelectric point)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0357
Structure retrieval (by code)
'Structure retrieval (by code)' SubClassOf 'Obsolete concept (EDAM)'
'Structure retrieval (by code)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0354
Sequence database search (by sequence for primer sequences)
'Sequence database search (by sequence for primer sequences)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by sequence for primer sequences)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0355
Sequence database search (by molecular weight)
'Sequence database search (by molecular weight)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by molecular weight)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0358
Structure retrieval (by keyword)
'Structure retrieval (by keyword)' SubClassOf 'Obsolete concept (EDAM)'
'Structure retrieval (by keyword)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2307
Virus annotation
'Virus annotation' SubClassOf 'Obsolete concept (EDAM)'
'Virus annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0359
Structure database search (by sequence)
'Structure database search (by sequence)' SubClassOf 'Obsolete concept (EDAM)'
'Structure database search (by sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2300
Gene name (NCBI)
'Gene name (NCBI)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (NCBI)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0352
Sequence database search (by sequence using local alignment-based methods)
'Sequence database search (by sequence using local alignment-based methods)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by sequence using local alignment-based methods)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0353
Sequence database search (by sequence using global alignment-based methods)
'Sequence database search (by sequence using global alignment-based methods)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by sequence using global alignment-based methods)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0350
Sequence database search (by sequence using word-based methods)
'Sequence database search (by sequence using word-based methods)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by sequence using word-based methods)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0351
Sequence database search (by sequence using profile-based methods)
'Sequence database search (by sequence using profile-based methods)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search (by sequence using profile-based methods)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0323
Phylogenetic tree generation
'Phylogenetic tree generation' SubClassOf 'has topic' some 'Sequence analysis'
'Phylogenetic tree generation' SubClassOf 'has output' some 'Phylogenetic tree'
'Phylogenetic tree generation' SubClassOf 'Phylogenetic tree processing'
'Phylogenetic tree generation' SubClassOf 'Phylogenetic tree analysis'
http://edamontology.org/operation_0324
Phylogenetic tree analysis
'Phylogenetic tree analysis' SubClassOf 'Phylogenetic tree processing'
'Phylogenetic tree analysis' SubClassOf 'has output' some 'Phylogenetic data'
'Phylogenetic tree analysis' SubClassOf 'has input' some 'Phylogenetic tree'
'Phylogenetic tree analysis' SubClassOf 'Analysis'
http://edamontology.org/operation_0321
Protein model validation
'Protein model validation' SubClassOf 'has topic' some 'Molecular modelling'
'Protein model validation' SubClassOf 'has output' some 'Protein structural quality report'
'Protein model validation' SubClassOf 'has topic' some 'Protein structure prediction'
http://edamontology.org/operation_0327
Phylogenetic footprinting / shadowing
'Phylogenetic footprinting / shadowing' SubClassOf 'has topic' some 'Phylogenomics'
http://edamontology.org/operation_0325
Phylogenetic tree comparison
'Phylogenetic tree comparison' SubClassOf 'Phylogenetic tree processing'
'Phylogenetic tree comparison' SubClassOf 'Phylogenetic tree analysis'
http://edamontology.org/operation_0326
Phylogenetic tree editing
'Phylogenetic tree editing' SubClassOf 'has output' some 'Phylogenetic tree'
'Phylogenetic tree editing' SubClassOf 'Phylogenetic tree processing'
'Phylogenetic tree editing' SubClassOf 'has input' some 'Phylogenetic tree'
'Phylogenetic tree editing' SubClassOf 'Phylogenetic tree analysis'
http://edamontology.org/operation_0320
Protein structure assignment
'Protein structure assignment' SubClassOf 'Protein analysis'
'Protein structure assignment' SubClassOf 'has topic' some 'Structural biology'
'Protein structure assignment' SubClassOf 'has output' some 'Protein structure'
http://www.ebi.ac.uk/swo/data/SWO_3000062
FCS3.0
'FCS3.0' SubClassOf 'has version' value 'FCS Data Standard Version 3.0'
http://www.ebi.ac.uk/swo/data/SWO_3000060
Affymetrix-compliant data
'Affymetrix-compliant data' EquivalentTo 'has format specification' some
('data format specification' and ('is published by' value 'Affymetrix'))
http://edamontology.org/operation_0318
Structural genomics target selection
'Structural genomics target selection' SubClassOf 'Obsolete concept (EDAM)'
'Structural genomics target selection' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0319
Protein secondary structure assignment
'Protein secondary structure assignment' SubClassOf 'has topic' some 'Structural biology'
'Protein secondary structure assignment' SubClassOf 'has topic' some 'Protein structure analysis'
http://www.ebi.ac.uk/swo/data/SWO_3000068
BLASTN
'BLASTN' SubClassOf 'has specified data input' some
('DNA nucleotide sequence' and ('has format specification' some 'GenBank format'))
'BLASTN' SubClassOf 'has specified data input' some
('DNA nucleotide sequence' and ('has format specification' some 'FASTA format'))
http://edamontology.org/operation_0334
Enzyme kinetics calculation
'Enzyme kinetics calculation' SubClassOf 'has topic' some 'Enzymes'
'Enzyme kinetics calculation' SubClassOf 'has output' some 'Enzyme kinetics data'
http://edamontology.org/operation_0332
Immunogen design
'Immunogen design' SubClassOf 'Obsolete concept (EDAM)'
'Immunogen design' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0333
Zinc finger prediction
'Zinc finger prediction' SubClassOf 'has topic' some 'Protein folding, stability and design'
'Zinc finger prediction' SubClassOf 'has output' some 'Protein interaction report'
http://edamontology.org/operation_0338
Sequence database search
'Sequence database search' SubClassOf 'has output' some 'Sequence search results'
'Sequence database search' SubClassOf 'has topic' some 'Sequence comparison'
http://edamontology.org/operation_0339
Structure database search
'Structure database search' SubClassOf 'has topic' some 'Structure analysis'
http://edamontology.org/operation_0336
Format validation
'Format validation' SubClassOf 'Utility operation'
http://edamontology.org/operation_0337
Visualisation
'Visualisation' SubClassOf 'information processing'
'Visualisation' SubClassOf 'has input' some 'data'
'Visualisation' SubClassOf 'has topic' some 'Data visualisation'
'Visualisation' SubClassOf 'has output' some 'Image'
'Visualisation' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_0330
Protein SNP mapping
'Protein SNP mapping' SubClassOf 'Protein modelling (mutation)'
'Protein SNP mapping' SubClassOf 'has topic' some 'SNP'
'Protein SNP mapping' SubClassOf 'Mapping'
'Protein SNP mapping' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2993
Molecular interaction data processing
'Molecular interaction data processing' SubClassOf 'Obsolete concept (EDAM)'
'Molecular interaction data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0331
Protein modelling (mutation)
'Protein modelling (mutation)' SubClassOf 'has topic' some 'Genetic variation'
'Protein modelling (mutation)' SubClassOf 'Prediction and recognition (protein)'
'Protein modelling (mutation)' SubClassOf 'has topic' some 'Protein folding, stability and design'
http://edamontology.org/operation_2990
Classification
'Classification' SubClassOf 'Analysis'
'Classification' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/format_1391
HMMER-aln
'HMMER-aln' SubClassOf 'Textual format'
http://www.ebi.ac.uk/swo/data/SWO_3000059
CEL ASCII format
'CEL ASCII format' SubClassOf 'is published by' value 'Affymetrix'
http://www.ebi.ac.uk/swo/data/SWO_3000058
BAR
'BAR' SubClassOf 'is published by' value 'Affymetrix'
http://www.ebi.ac.uk/swo/data/SWO_3000057
CDF ASCII format
'CDF ASCII format' SubClassOf 'is published by' value 'Affymetrix'
http://www.ebi.ac.uk/swo/data/SWO_3000056
BioPAX Manchester OWL Syntax format
'BioPAX Manchester OWL Syntax format' SubClassOf 'is alternative format of' some 'BioPAX RDF/XML format'
'BioPAX Manchester OWL Syntax format' SubClassOf 'has_role' some 'Knowledge representation role'
http://www.ebi.ac.uk/swo/data/SWO_3000055
BioPAX RDF/XML format
'BioPAX RDF/XML format' SubClassOf 'has_role' some 'Knowledge representation role'
http://edamontology.org/operation_0389
Protein-nucleic acid binding site analysis
'Protein-nucleic acid binding site analysis' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/data_1008
Polypeptide chain ID
'Polypeptide chain ID' SubClassOf 'is identifier of' some 'Protein chain'
http://edamontology.org/operation_0387
Protein surface and interior calculation
'Protein surface and interior calculation' SubClassOf 'Protein solvent accessibility calculation'
'Protein surface and interior calculation' SubClassOf 'has topic' some 'Protein structural motifs and surfaces'
'Protein surface and interior calculation' SubClassOf 'Protein surface analysis'
http://edamontology.org/operation_0388
Protein binding site prediction (from structure)
'Protein binding site prediction (from structure)' SubClassOf 'Protein structural motif recognition'
'Protein binding site prediction (from structure)' SubClassOf 'Protein binding site prediction'
'Protein binding site prediction (from structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2337
Resource metadata
'Resource metadata' SubClassOf 'data'
'Resource metadata' SubClassOf 'Report'
http://edamontology.org/data_2338
Ontology identifier
'Ontology identifier' SubClassOf 'is identifier of' some 'Ontology'
http://edamontology.org/operation_0385
Protein hydropathy cluster calculation
'Protein hydropathy cluster calculation' SubClassOf 'Protein hydropathy calculation (from structure)'
'Protein hydropathy cluster calculation' SubClassOf 'Protein residue cluster calculation'
'Protein hydropathy cluster calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0386
Protein dipole moment calculation
'Protein dipole moment calculation' SubClassOf 'has output' some 'Protein dipole moment'
http://edamontology.org/operation_0383
Protein hydropathy calculation (from structure)
'Protein hydropathy calculation (from structure)' SubClassOf 'Protein hydropathy calculation'
'Protein hydropathy calculation (from structure)' SubClassOf 'Protein structure analysis'
'Protein hydropathy calculation (from structure)' SubClassOf 'Protein property calculation (from structure)'
'Protein hydropathy calculation (from structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0384
Protein solvent accessibility calculation
'Protein solvent accessibility calculation' SubClassOf 'Protein property calculation (from structure)'
'Protein solvent accessibility calculation' SubClassOf 'has output' some 'Protein solvent accessibility'
'Protein solvent accessibility calculation' SubClassOf 'has topic' some 'Protein properties'
'Protein solvent accessibility calculation' SubClassOf 'Protein surface analysis'
http://edamontology.org/data_1019
Protein feature identifier
'Protein feature identifier' SubClassOf 'Obsolete concept (EDAM)'
'Protein feature identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1018
Nucleic acid feature identifier
'Nucleic acid feature identifier' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid feature identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0398
Protein molecular weight calculation
'Protein molecular weight calculation' SubClassOf 'has topic' some 'Proteomics'
'Protein molecular weight calculation' SubClassOf 'has output' some 'Peptide molecular weights'
http://edamontology.org/operation_0399
Protein extinction coefficient calculation
'Protein extinction coefficient calculation' SubClassOf 'has output' some 'Protein extinction coefficient'
http://edamontology.org/operation_3429
Generation
'Generation' SubClassOf 'Analysis'
'Generation' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_0392
Protein contact map calculation
'Protein contact map calculation' SubClassOf 'has output' some 'Protein contact map'
'Protein contact map calculation' SubClassOf 'Residue contact calculation (residue-residue)'
'Protein contact map calculation' SubClassOf 'Protein distance matrix calculation'
http://edamontology.org/operation_0393
Protein residue cluster calculation
'Protein residue cluster calculation' SubClassOf 'Residue contact calculation (residue-residue)'
'Protein residue cluster calculation' SubClassOf 'has output' some 'Protein residue 3D cluster'
'Protein residue cluster calculation' SubClassOf 'Residue contact calculation'
http://edamontology.org/operation_0391
Protein distance matrix calculation
'Protein distance matrix calculation' SubClassOf 'has output' some 'Protein distance matrix'
'Protein distance matrix calculation' SubClassOf 'Residue interaction calculation'
'Protein distance matrix calculation' SubClassOf 'Residue contact calculation'
http://edamontology.org/operation_0396
Ramachandran plot calculation
'Ramachandran plot calculation' SubClassOf 'has output' some 'Ramachandran plot'
http://edamontology.org/operation_0397
Ramachandran plot validation
'Ramachandran plot validation' SubClassOf 'has input' some 'Ramachandran plot'
'Ramachandran plot validation' SubClassOf 'has output' some 'Protein structural quality report'
http://edamontology.org/data_1014
Sequence position specification
'Sequence position specification' SubClassOf 'Obsolete concept (EDAM)'
'Sequence position specification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0394
Hydrogen bond calculation
'Hydrogen bond calculation' SubClassOf 'has output' some 'Protein hydrogen bonds'
http://edamontology.org/operation_0395
Residue non-canonical interaction detection
'Residue non-canonical interaction detection' SubClassOf 'Protein model validation'
'Residue non-canonical interaction detection' SubClassOf 'Residue interaction calculation'
'Residue non-canonical interaction detection' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://purl.obolibrary.org/obo/BFO_0000040
material entity
'material entity' DisjointWith 'Obsolete concept (EDAM)'
http://edamontology.org/data_1029
Gene identifier (NCBI UniGene)
'Gene identifier (NCBI UniGene)' SubClassOf 'Obsolete concept (EDAM)'
'Gene identifier (NCBI UniGene)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0365
Nucleic acid restriction digest
'Nucleic acid restriction digest' SubClassOf 'has output' some 'Restriction digest'
http://edamontology.org/data_1028
Gene identifier (NCBI RefSeq)
'Gene identifier (NCBI RefSeq)' SubClassOf 'Obsolete concept (EDAM)'
'Gene identifier (NCBI RefSeq)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0366
Protein sequence cleavage
'Protein sequence cleavage' SubClassOf 'has output' some 'Proteolytic digest'
'Protein sequence cleavage' SubClassOf 'has topic' some 'Proteomics'
http://edamontology.org/data_2359
Domain-domain interactions
'Domain-domain interactions' SubClassOf 'Obsolete concept (EDAM)'
'Domain-domain interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2355
RNA family identifier
'RNA family identifier' SubClassOf 'is identifier of' some 'RNA family report'
http://edamontology.org/data_1022
Sequence feature label
'Sequence feature label' SubClassOf 'Sequence feature identifier'
'Sequence feature label' SubClassOf 'Name'
http://edamontology.org/operation_0360
Structural similarity search
'Structural similarity search' SubClassOf 'has topic' some 'Structure comparison'
http://edamontology.org/data_2357
Protein signature type
'Protein signature type' SubClassOf 'Obsolete concept (EDAM)'
'Protein signature type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2358
Domain-nucleic acid interaction report
'Domain-nucleic acid interaction report' SubClassOf 'Obsolete concept (EDAM)'
'Domain-nucleic acid interaction report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2353
Ontology data
'Ontology data' SubClassOf 'has topic' some 'Ontology and terminology'
'Ontology data' SubClassOf 'data'
'Ontology data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_1025
Gene identifier
'Gene identifier' SubClassOf 'is identifier of' some 'Gene report'
http://edamontology.org/operation_0361
Sequence annotation
'Sequence annotation' SubClassOf 'has input' some 'Sequence record'
'Sequence annotation' SubClassOf 'has output' some 'Sequence record'
http://edamontology.org/data_1024
Codon name
'Codon name' SubClassOf 'Obsolete concept (EDAM)'
'Codon name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://purl.obolibrary.org/obo/IAO_0000030
information content entity
'information content entity' DisjointWith 'Obsolete concept (EDAM)'
http://edamontology.org/operation_0378
Sequence composition calculation (protein)
'Sequence composition calculation (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence composition calculation (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0377
Sequence composition calculation (nucleic acid)
'Sequence composition calculation (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence composition calculation (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0371
DNA translation
'DNA translation' SubClassOf 'has topic' some 'Protein expression'
http://edamontology.org/data_1038
Protein domain ID
'Protein domain ID' SubClassOf 'is identifier of' some 'Protein domain'
http://edamontology.org/data_2362
Sequence accession (hybrid)
'Sequence accession (hybrid)' SubClassOf 'is identifier of' some 'Sequence record'
http://edamontology.org/data_2363
2D PAGE data
'2D PAGE data' SubClassOf 'Obsolete concept (EDAM)'
'2D PAGE data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2364
2D PAGE report
'2D PAGE report' SubClassOf 'Obsolete concept (EDAM)'
'2D PAGE report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0372
DNA transcription
'DNA transcription' SubClassOf 'has topic' some 'Gene expression'
http://purl.obolibrary.org/obo/IAO_0000027
data
'data' SubClassOf 'is encoded in' some 'data format specification'
'data' DisjointWith 'data format specification'
'data' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
'Topic' DisjointWith 'data'
'data' DisjointWith 'information processing'
http://edamontology.org/data_2360
Domain-domain interaction (indirect)
'Domain-domain interaction (indirect)' SubClassOf 'Obsolete concept (EDAM)'
'Domain-domain interaction (indirect)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1030
Gene identifier (Entrez)
'Gene identifier (Entrez)' SubClassOf 'Obsolete concept (EDAM)'
'Gene identifier (Entrez)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2953
Nucleic acid design
'Nucleic acid design' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid design' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3459
Functional clustering
'Functional clustering' SubClassOf 'has topic' some 'Function analysis'
http://edamontology.org/operation_3457
Single particle analysis
'Single particle analysis' SubClassOf 'has topic' some 'Structural biology'
http://edamontology.org/operation_2120
Listfile processing
'Listfile processing' SubClassOf 'Obsolete concept (EDAM)'
'Listfile processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2378
Protein-motif interaction
'Protein-motif interaction' SubClassOf 'Obsolete concept (EDAM)'
'Protein-motif interaction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3450
Neurite measurement
'Neurite measurement' SubClassOf 'has topic' some 'Cell biology'
http://edamontology.org/data_1048
Database ID
'Database ID' SubClassOf 'is identifier of' some 'Database metadata'
http://edamontology.org/operation_2123
Small molecule data processing
'Small molecule data processing' SubClassOf 'Obsolete concept (EDAM)'
'Small molecule data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2122
Sequence alignment file processing
'Sequence alignment file processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment file processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2121
Sequence file editing
'Sequence file editing' SubClassOf 'Sequence analysis'
http://edamontology.org/format_3167
Experiment annotation format
'Experiment annotation format' SubClassOf 'is format of' some 'Experiment report'
http://edamontology.org/format_3166
Biological pathway or network report format
'Biological pathway or network report format' SubClassOf 'is format of' some 'Pathway or network report'
http://edamontology.org/data_2372
2D PAGE spot report
'2D PAGE spot report' SubClassOf 'Obsolete concept (EDAM)'
'2D PAGE spot report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3162
MAGE-TAB
'MAGE-TAB' SubClassOf 'Textual format'
'MAGE-TAB' SubClassOf 'Microarray experiment data format'
http://edamontology.org/format_3164
GTrack
'GTrack' SubClassOf 'Sequence feature table format (text)'
http://edamontology.org/operation_3469
RNA structure covariance model generation
'RNA structure covariance model generation' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
http://edamontology.org/operation_3461
Virulence prediction
'Virulence prediction' SubClassOf 'has topic' some 'Microbiology'
http://edamontology.org/format_3161
MAGE-ML
'MAGE-ML' SubClassOf 'Microarray experiment data format'
http://edamontology.org/data_1057
Sequence database name
'Sequence database name' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3463
Gene expression correlation analysis
'Gene expression correlation analysis' SubClassOf 'Correlation'
'Gene expression correlation analysis' SubClassOf http://edamontology.org/operation_3465
http://edamontology.org/data_2381
Experiment report (genotyping)
'Experiment report (genotyping)' SubClassOf 'Obsolete concept (EDAM)'
'Experiment report (genotyping)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2382
Genotype experiment ID
'Genotype experiment ID' SubClassOf 'is identifier of' some 'Experiment report'
http://edamontology.org/data_1051
Ontology name
'Ontology name' SubClassOf 'is identifier of' some 'Ontology'
http://edamontology.org/operation_3435
Standardization and normalization
'Standardization and normalization' SubClassOf 'Analysis'
'Standardization and normalization' SubClassOf 'Statistical calculation'
http://edamontology.org/operation_3434
Conversion
'Conversion' SubClassOf 'Utility operation'
'Conversion' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000133
DAVID
'DAVID' SubClassOf 'has interface' some 'web service'
'DAVID' SubClassOf 'has website homepage' value "http://david.abcc.ncifcrf.gov/"
'DAVID' SubClassOf 'is executed in' some 'Gene-Set Enrichment Analysis'
'DAVID' SubClassOf 'has interface' some 'web user interface'
http://www.ebi.ac.uk/swo/SWO_0000135
PSI-BLAST
'PSI-BLAST' SubClassOf 'has license' some 'free to use license'
'PSI-BLAST' SubClassOf 'software'
'PSI-BLAST' SubClassOf 'has interface' some 'graphical user interface'
'PSI-BLAST' SubClassOf 'has specified data input' some
('amino acid protein sequence data' and ('has format specification' some 'GenBank format'))
'PSI-BLAST' SubClassOf 'has specified data input' some
('amino acid protein sequence data' and ('has format specification' some 'FASTA format'))
http://edamontology.org/operation_3439
Pathway or network prediction
'Pathway or network prediction' SubClassOf 'Pathway or network processing'
'Pathway or network prediction' SubClassOf 'Pathway or network analysis'
http://www.ebi.ac.uk/swo/SWO_0000138
Entrez
'Entrez' SubClassOf 'has interface' some 'web user interface'
'Entrez' SubClassOf 'software'
'Entrez' SubClassOf 'is executed in' some 'web content search'
'Entrez' SubClassOf 'search engine'
http://edamontology.org/operation_3438
Calculation
'Calculation' SubClassOf 'Analysis'
'Calculation' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000137
NONMEM
'NONMEM' SubClassOf 'is encoded in' some 'NMTRAN'
'NONMEM' SubClassOf 'implements' some 'SAEM'
'NONMEM' SubClassOf 'has interface' some 'command-line interface'
'NONMEM' SubClassOf 'has license' some 'Proprietary commercial software license'
'NONMEM' SubClassOf 'software'
'NONMEM' SubClassOf 'has version' value '7.2.0'
'NONMEM' SubClassOf 'software with command line interface'
http://edamontology.org/data_1067
Phylogenetic distance matrix identifier
'Phylogenetic distance matrix identifier' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic distance matrix identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2399
Gene transcriptional features report
'Gene transcriptional features report' SubClassOf 'Obsolete concept (EDAM)'
'Gene transcriptional features report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1066
Sequence alignment ID
'Sequence alignment ID' SubClassOf 'is identifier of' some 'Sequence alignment'
http://edamontology.org/data_1065
Sequence signature identifier
'Sequence signature identifier' SubClassOf 'Obsolete concept (EDAM)'
'Sequence signature identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1064
Sequence set ID
'Sequence set ID' SubClassOf 'is identifier of' some 'Sequence set'
http://edamontology.org/data_2395
Fungi annotation
'Fungi annotation' SubClassOf 'Obsolete concept (EDAM)'
'Fungi annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3433
Assembly
'Assembly' SubClassOf 'Analysis'
'Assembly' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/data_2396
Fungi annotation (anamorph)
'Fungi annotation (anamorph)' SubClassOf 'Obsolete concept (EDAM)'
'Fungi annotation (anamorph)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3432
Clustering
'Clustering' SubClassOf 'Analysis'
'Clustering' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/data_1069
Comparison matrix identifier
'Comparison matrix identifier' SubClassOf 'is identifier of' some 'Comparison matrix'
http://edamontology.org/data_2397
Gene features report (exon)
'Gene features report (exon)' SubClassOf 'Obsolete concept (EDAM)'
'Gene features report (exon)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3431
Deposition
'Deposition' SubClassOf 'information processing'
'Deposition' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/data_1068
Phylogenetic tree ID
'Phylogenetic tree ID' SubClassOf 'is identifier of' some 'Phylogenetic tree'
http://edamontology.org/data_1063
Sequence identifier
'Sequence identifier' SubClassOf 'is identifier of' some 'Sequence'
http://edamontology.org/data_1062
Database entry identifier
'Database entry identifier' SubClassOf 'Obsolete concept (EDAM)'
'Database entry identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1061
QSAR descriptor name
'QSAR descriptor name' SubClassOf 'is identifier of' some 'QSAR descriptor'
http://www.ebi.ac.uk/swo/SWO_0000142
PostgreSQL
'PostgreSQL' SubClassOf 'is executed in' some 'data storage'
'PostgreSQL' SubClassOf 'has website homepage' value "http://www.postgresql.org/"
http://edamontology.org/operation_3446
Cell migration analysis
'Cell migration analysis' SubClassOf 'has topic' some 'Cell biology'
http://www.ebi.ac.uk/swo/SWO_0000145
Segway 1.2
'Segway 1.2' SubClassOf 'has version' value 'Segway version 1.2'
'Segway 1.2' SubClassOf 'has license' some 'GNU GPL v2'
'Segway 1.2' SubClassOf 'is executed in' some 'Genome annotation'
'Segway 1.2' SubClassOf 'has specified data output' some 'GMTK parameter data'
'Segway 1.2' SubClassOf 'implements' some 'dynamic Bayesian network model'
'Segway 1.2' SubClassOf 'is encoded in' some
('Python 2.6' or 'Python 2.7')
'Segway 1.2' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'BED format'))
'Segway 1.2' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'genomedata format'))
http://www.ebi.ac.uk/swo/SWO_0000147
Python 2.7
'Python 2.7' SubClassOf 'has version' value 'Python version 2.7'
http://www.ebi.ac.uk/swo/SWO_0000146
Python 2.6
'Python 2.6' SubClassOf 'has version' value 'Python version 2.6'
http://edamontology.org/data_1078
Microarray experiment annotation ID
'Microarray experiment annotation ID' SubClassOf 'is identifier of' some 'Experiment report'
http://edamontology.org/operation_3440
Genome assembly
'Genome assembly' SubClassOf 'Sequence assembly'
'Genome assembly' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1077
Transcription factor identifier
'Transcription factor identifier' SubClassOf 'Identifier (typed)'
http://edamontology.org/data_1076
Codon usage table name
'Codon usage table name' SubClassOf 'is identifier of' some 'Codon usage table'
'Codon usage table name' SubClassOf 'is identifier of' some 'Genetic code'
http://edamontology.org/data_1075
Protein family identifier
'Protein family identifier' SubClassOf 'is identifier of' some 'Protein family report'
http://edamontology.org/operation_3443
Image analysis
'Image analysis' SubClassOf 'Operation (typed)'
'Image analysis' SubClassOf 'has topic' some 'Imaging'
'Image analysis' SubClassOf 'Analysis'
http://www.ebi.ac.uk/swo/SWO_0000141
Weka
'Weka' SubClassOf 'has website homepage' value "http://www.cs.waikato.ac.nz/~ml/weka/"
'Weka' SubClassOf 'has license' some 'GNU GPL'
'Weka' SubClassOf 'has interface' some 'graphical user interface'
'Weka' SubClassOf 'is encoded in' some 'Java'
http://edamontology.org/data_1079
Electron microscopy model ID
'Electron microscopy model ID' SubClassOf 'is identifier of' some 'Electron microscopy model'
http://edamontology.org/operation_3441
Plotting
'Plotting' SubClassOf 'Analysis'
'Plotting' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000140
search engine
'search engine' EquivalentTo 'software' and ('is executed in' some 'web content search')
http://edamontology.org/data_1074
Protein interaction ID
'Protein interaction ID' SubClassOf 'is identifier of' some 'Protein interaction report'
http://edamontology.org/data_1073
Amino acid index ID
'Amino acid index ID' SubClassOf 'is identifier of' some 'Amino acid index'
http://edamontology.org/data_1072
Structure alignment ID
'Structure alignment ID' SubClassOf 'is identifier of' some 'Structure alignment'
http://edamontology.org/data_1071
Structural (3D) profile ID
'Structural (3D) profile ID' SubClassOf 'is identifier of' some 'Structural profile'
http://edamontology.org/data_1088
Article ID
'Article ID' SubClassOf 'is identifier of' some 'Article'
http://edamontology.org/data_1086
Compound identifier
'Compound identifier' SubClassOf 'is identifier of' some 'Small molecule report'
http://edamontology.org/data_1081
Genotype and phenotype annotation ID
'Genotype and phenotype annotation ID' SubClassOf 'is identifier of' some 'Genotype/phenotype report'
http://edamontology.org/data_1080
Gene expression report ID
'Gene expression report ID' SubClassOf 'is identifier of' some 'Processed microarray data'
http://edamontology.org/data_1085
Biological model ID
'Biological model ID' SubClassOf 'is identifier of' some 'Mathematical model'
http://edamontology.org/data_1082
Pathway or network identifier
'Pathway or network identifier' SubClassOf 'is identifier of' some 'Pathway or network'
http://edamontology.org/data_1099
UniProt accession (extended)
'UniProt accession (extended)' SubClassOf 'Obsolete concept (EDAM)'
'UniProt accession (extended)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1097
Sequence accession (nucleic acid)
'Sequence accession (nucleic acid)' SubClassOf 'is identifier of' some 'Nucleic acid sequence'
http://edamontology.org/data_1096
Sequence accession (protein)
'Sequence accession (protein)' SubClassOf 'is identifier of' some 'Protein sequence'
http://edamontology.org/data_1094
Sequence type
'Sequence type' SubClassOf 'Obsolete concept (EDAM)'
'Sequence type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3478
Phylogenetic tree reconstruction
'Phylogenetic tree reconstruction' SubClassOf 'has topic' some 'Phylogeny'
http://edamontology.org/operation_3482
Antimicrobial resistance prediction
'Antimicrobial resistance prediction' SubClassOf 'has topic' some 'Microbiology'
http://edamontology.org/topic_3301
Microbiology
'Microbiology' SubClassOf 'Biomedical science'
'Microbiology' SubClassOf 'Biology'
http://edamontology.org/topic_3307
Computational biology
'Computational biology' SubClassOf 'Computer science'
'Computational biology' SubClassOf 'Biology'
'Computational biology' SubClassOf 'Topic'
http://edamontology.org/topic_3323
Metabolic disease
'Metabolic disease' SubClassOf 'Obsolete concept (EDAM)'
'Metabolic disease' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3321
Molecular genetics
'Molecular genetics' SubClassOf 'Computational biology'
http://edamontology.org/topic_3320
RNA splicing
'RNA splicing' SubClassOf 'Molecular genetics'
'RNA splicing' SubClassOf 'Gene expression'
http://edamontology.org/data_1801
Gene ID (GeneDB Trypanosoma brucei)
'Gene ID (GeneDB Trypanosoma brucei)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (GeneDB Trypanosoma brucei)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1800
Gene ID (GeneDB Schizosaccharomyces pombe)
'Gene ID (GeneDB Schizosaccharomyces pombe)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (GeneDB Schizosaccharomyces pombe)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3344
Biomedical science
'Biomedical science' SubClassOf 'Biology'
'Biomedical science' SubClassOf 'Medicine'
'Biomedical science' SubClassOf 'Topic'
http://edamontology.org/data_1806
Gene synonym
'Gene synonym' SubClassOf 'Obsolete concept (EDAM)'
'Gene synonym' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3346
Sequence search
'Sequence search' SubClassOf 'Sequence analysis'
'Sequence search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3097
Protein domain classification format
'Protein domain classification format' SubClassOf 'is format of' some 'Protein family report'
http://purl.obolibrary.org/obo/IAO_0000098
data format specification
'Topic' DisjointWith 'data format specification'
'data format specification' DisjointWith 'information processing'
'data' DisjointWith 'data format specification'
'data format specification' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3379
Preclinical and clinical studies
'Preclinical and clinical studies' SubClassOf http://edamontology.org/topic_3678
http://edamontology.org/operation_2931
Secondary structure comparison
'Secondary structure comparison' SubClassOf 'has topic' some 'Structure comparison'
http://edamontology.org/operation_2930
Protein property comparison
'Protein property comparison' SubClassOf 'has output' some 'Protein property'
http://edamontology.org/data_1853
Chromosome annotation (aberration)
'Chromosome annotation (aberration)' SubClassOf 'Obsolete concept (EDAM)'
'Chromosome annotation (aberration)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2932
Hopp and Woods plotting
'Hopp and Woods plotting' SubClassOf 'Peptide immunogenicity prediction'
'Hopp and Woods plotting' SubClassOf 'Plotting'
'Hopp and Woods plotting' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1852
Sequence assembly component
'Sequence assembly component' SubClassOf 'Obsolete concept (EDAM)'
'Sequence assembly component' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2928
Alignment
'Alignment' SubClassOf 'has output' some 'Alignment'
'Alignment' SubClassOf 'Analysis'
http://kt.ijs.si/panovp/OntoDM#OntoDM_000087
probability distribution estimation task
DisjointClasses: 'probability distribution estimation task', 'pattern discovery task', 'predictive modeling task', 'clustering task'
http://edamontology.org/data_1866
Map type
'Map type' SubClassOf 'Obsolete concept (EDAM)'
'Map type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1865
Map feature
'Map feature' SubClassOf 'Obsolete concept (EDAM)'
'Map feature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://kt.ijs.si/panovp/OntoDM#OntoDM_000092
pattern discovery task
DisjointClasses: 'probability distribution estimation task', 'pattern discovery task', 'predictive modeling task', 'clustering task'
http://edamontology.org/data_1869
Organism identifier
'Organism identifier' SubClassOf 'is identifier of' some 'Organism report'
http://edamontology.org/topic_3391
Omics
'Omics' SubClassOf 'Biology'
'Omics' SubClassOf 'Topic'
http://edamontology.org/data_1878
Misspelling
'Misspelling' SubClassOf 'Obsolete concept (EDAM)'
'Misspelling' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1877
Synonym
'Synonym' SubClassOf 'Obsolete concept (EDAM)'
'Synonym' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1879
Acronym
'Acronym' SubClassOf 'Obsolete concept (EDAM)'
'Acronym' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1316
est2genome format
'est2genome format' SubClassOf 'Gene features (coding region) format'
'est2genome format' SubClassOf 'Gene annotation format'
http://edamontology.org/data_1889
Gene name (DragonDB)
'Gene name (DragonDB)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (DragonDB)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0301
Sequence-to-3D-profile alignment
'Sequence-to-3D-profile alignment' SubClassOf 'has input' some 'Structural profile'
'Sequence-to-3D-profile alignment' SubClassOf 'has output' some 'Sequence-structure alignment'
http://edamontology.org/operation_2964
Codon usage fraction calculation
'Codon usage fraction calculation' SubClassOf 'has output' some 'Codon usage fraction difference'
http://edamontology.org/data_1888
Gene ID (MIPS Medicago)
'Gene ID (MIPS Medicago)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (MIPS Medicago)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0302
Protein threading
'Protein threading' SubClassOf 'has input' some 'Protein structure'
'Protein threading' SubClassOf 'has output' some 'Sequence-structure alignment'
http://edamontology.org/operation_2963
Codon usage bias plotting
'Codon usage bias plotting' SubClassOf 'has output' some 'Codon usage bias plot'
http://edamontology.org/data_1887
Gene ID (MIPS Maize)
'Gene ID (MIPS Maize)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (MIPS Maize)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2962
Codon usage bias calculation
'Codon usage bias calculation' SubClassOf 'has output' some 'Codon usage bias'
http://edamontology.org/operation_0300
Sequence-to-profile alignment
'Sequence-to-profile alignment' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence-to-profile alignment' SubClassOf 'has input' some 'Sequence profile'
'Sequence-to-profile alignment' SubClassOf 'has output' some 'Sequence-profile alignment'
http://edamontology.org/operation_0305
Literature search
'Literature search' SubClassOf 'has topic' some 'Literature and reference'
'Literature search' SubClassOf 'has output' some 'Citation'
http://edamontology.org/operation_0306
Text mining
'Text mining' SubClassOf 'has input' some 'Report'
'Text mining' SubClassOf 'has topic' some 'Data mining'
'Text mining' SubClassOf 'has output' some 'Text mining report'
'Text mining' SubClassOf 'Prediction and recognition'
http://edamontology.org/operation_0303
Protein fold recognition
'Protein fold recognition' SubClassOf 'has topic' some 'Protein fold recognition'
http://edamontology.org/operation_0304
Metadata retrieval
'Metadata retrieval' SubClassOf 'has output' some 'Resource metadata'
http://edamontology.org/data_1880
Misnomer
'Misnomer' SubClassOf 'Obsolete concept (EDAM)'
'Misnomer' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1884
UniProt keywords
'UniProt keywords' SubClassOf 'Obsolete concept (EDAM)'
'UniProt keywords' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0312
Sequencing-based expression profile data processing
'Sequencing-based expression profile data processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequencing-based expression profile data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0313
Gene expression profile clustering
'Gene expression profile clustering' SubClassOf 'has output' some 'Processed microarray data'
http://edamontology.org/operation_0310
Sequence assembly
'Sequence assembly' SubClassOf 'has topic' some 'Sequence assembly'
'Sequence assembly' SubClassOf 'has output' some 'Sequence assembly'
http://edamontology.org/operation_0311
Microarray data standardization and normalization
'Microarray data standardization and normalization' SubClassOf 'has output' some 'Microarray hybridisation data'
'Microarray data standardization and normalization' SubClassOf 'Standardization and normalization'
'Microarray data standardization and normalization' SubClassOf 'has input' some 'Microarray hybridisation data'
'Microarray data standardization and normalization' SubClassOf 'Gene expression data analysis'
'Microarray data standardization and normalization' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0316
Functional profiling
'Functional profiling' SubClassOf 'Obsolete concept (EDAM)'
'Functional profiling' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0317
EST and cDNA sequence analysis
'EST and cDNA sequence analysis' SubClassOf 'Obsolete concept (EDAM)'
'EST and cDNA sequence analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0314
Gene expression profiling
'Gene expression profiling' SubClassOf 'has output' some 'Gene expression profile'
http://edamontology.org/operation_0315
Gene expression profile comparison
'Gene expression profile comparison' SubClassOf 'has output' some 'Processed microarray data'
http://edamontology.org/data_1892
Gene name (GeneFarm)
'Gene name (GeneFarm)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (GeneFarm)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1890
Gene name (Arabidopsis)
'Gene name (Arabidopsis)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (Arabidopsis)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1893
Locus ID
'Locus ID' SubClassOf 'is identifier of' some 'Sequence coordinates'
http://edamontology.org/operation_0309
Microarray probe design
'Microarray probe design' SubClassOf 'has output' some 'Oligonucleotide probe annotation'
'Microarray probe design' SubClassOf 'has topic' some 'Gene expression'
'Microarray probe design' SubClassOf 'Design'
'Microarray probe design' SubClassOf 'has topic' some 'Sequence design'
'Microarray probe design' SubClassOf 'has input' some 'Nucleic acid sequence'
http://edamontology.org/operation_0307
Virtual PCR
'Virtual PCR' SubClassOf 'has topic' some 'Nucleic acids'
http://edamontology.org/operation_0308
PCR primer design
'PCR primer design' SubClassOf 'has topic' some 'Sequence design'
'PCR primer design' SubClassOf 'has input' some 'Nucleic acid sequence'
'PCR primer design' SubClassOf 'has output' some 'PCR primers'
http://edamontology.org/operation_2946
Alignment analysis
'Alignment analysis' SubClassOf 'Obsolete concept (EDAM)'
'Alignment analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2945
Analysis
'Analysis' SubClassOf 'information processing'
'Analysis' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_2944
Physical mapping
'Physical mapping' SubClassOf 'has topic' some 'Mapping'
'Physical mapping' SubClassOf 'has output' some 'Physical map'
http://edamontology.org/operation_2952
Structure alignment processing
'Structure alignment processing' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2951
Alignment processing
'Alignment processing' SubClassOf 'Obsolete concept (EDAM)'
'Alignment processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0583
Directory metadata
'Directory metadata' SubClassOf 'Obsolete concept (EDAM)'
'Directory metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0582
Ontology
'Ontology' SubClassOf 'has topic' some 'Ontology and terminology'
'Ontology' SubClassOf 'Ontology data'
http://edamontology.org/data_0581
Database
'Database' SubClassOf 'Obsolete concept (EDAM)'
'Database' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2949
Protein interaction analysis
'Protein interaction analysis' SubClassOf 'has output' some 'Protein interaction report'
'Protein interaction analysis' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/operation_2948
Molecular interaction analysis
'Molecular interaction analysis' SubClassOf 'Obsolete concept (EDAM)'
'Molecular interaction analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2947
Article analysis
'Article analysis' SubClassOf 'has topic' some 'Literature and reference'
'Article analysis' SubClassOf 'Text mining'
'Article analysis' SubClassOf 'has output' some 'Article data'
'Article analysis' SubClassOf 'has input' some 'Article'
'Article analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0464
tRNA gene prediction
'tRNA gene prediction' SubClassOf 'Whole gene prediction'
'tRNA gene prediction' SubClassOf 'has topic' some 'Functional, regulatory and non-coding RNA'
'tRNA gene prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_0465
siRNA binding specificity prediction
'siRNA binding specificity prediction' SubClassOf 'has topic' some 'Functional, regulatory and non-coding RNA'
http://edamontology.org/operation_0460
Nucleic acid temperature profile plotting
'Nucleic acid temperature profile plotting' SubClassOf 'has output' some 'Nucleic acid temperature profile'
http://edamontology.org/operation_0461
Nucleic acid curvature calculation
'Nucleic acid curvature calculation' SubClassOf 'has output' some 'Nucleic acid property'
http://www.ebi.ac.uk/swo/maturity/SWO_9000073
Maintained
'Obsolete' DisjointWith 'Maintained'
http://edamontology.org/operation_0477
Protein modelling
'Protein modelling' SubClassOf 'has topic' some 'Molecular modelling'
http://edamontology.org/operation_0478
Molecular docking
'Molecular docking' SubClassOf 'has output' some 'Protein-ligand complex'
'Molecular docking' SubClassOf 'has output' some 'Protein complex'
'Molecular docking' SubClassOf 'has topic' some 'Molecular docking'
http://edamontology.org/operation_3502
Chemical class enrichment
'Chemical class enrichment' SubClassOf 'Gene expression data analysis'
'Chemical class enrichment' SubClassOf 'has topic' some 'Function analysis'
http://edamontology.org/operation_0475
Nucleic acid structure prediction
'Nucleic acid structure prediction' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
'Nucleic acid structure prediction' SubClassOf 'has output' some 'Nucleic acid structure'
http://edamontology.org/operation_3501
Enrichment
'Enrichment' SubClassOf 'has topic' some 'Function analysis'
'Enrichment' SubClassOf 'Gene expression data analysis'
http://edamontology.org/operation_0473
GPCR analysis
'GPCR analysis' SubClassOf 'has topic' some 'Membrane and lipoproteins'
http://edamontology.org/operation_0474
Protein structure prediction
'Protein structure prediction' SubClassOf 'Protein analysis'
'Protein structure prediction' SubClassOf 'has output' some 'Protein structure'
'Protein structure prediction' SubClassOf 'has topic' some 'Protein structure prediction'
http://purl.obolibrary.org/obo/IAO_0000129
version name
'version name' SubClassOf 'is version of' only
('programming language' or 'algorithm' or 'data format specification' or 'software' or 'software license')
http://edamontology.org/operation_1774
Annotation retrieval
'Annotation retrieval' SubClassOf 'Obsolete concept (EDAM)'
'Annotation retrieval' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0443
Transcription regulatory element prediction (trans)
'Transcription regulatory element prediction (trans)' SubClassOf 'has topic' some 'Functional, regulatory and non-coding RNA'
http://edamontology.org/operation_0449
Sequence alignment analysis (site correlation)
'Sequence alignment analysis (site correlation)' SubClassOf 'Correlation'
'Sequence alignment analysis (site correlation)' SubClassOf http://edamontology.org/operation_3465
http://edamontology.org/operation_1778
Protein function comparison
'Protein function comparison' SubClassOf 'has topic' some 'Function analysis'
http://edamontology.org/operation_0446
Exonic splicing enhancer prediction
'Exonic splicing enhancer prediction' SubClassOf 'has topic' some 'Gene structure'
http://edamontology.org/operation_1777
Protein function prediction
'Protein function prediction' SubClassOf 'has topic' some 'Function analysis'
http://edamontology.org/data_1100
PIR identifier
'PIR identifier' SubClassOf 'is identifier of' some 'Sequence record'
http://edamontology.org/data_1101
TREMBL accession
'TREMBL accession' SubClassOf 'Obsolete concept (EDAM)'
'TREMBL accession' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/algorithm/OntoDM_170075
clustering algorithm
DisjointClasses: 'clustering algorithm', 'pattern discovery algorithm', 'predictive modeling algorithm'
http://edamontology.org/operation_0439
Translation initiation site prediction
'Translation initiation site prediction' SubClassOf 'has topic' some 'Protein expression'
http://edamontology.org/operation_0455
Nucleic acid thermodynamic property calculation
'Nucleic acid thermodynamic property calculation' SubClassOf 'has output' some 'Nucleic acid thermodynamic data'
http://edamontology.org/data_1118
HMMER hidden Markov model ID
'HMMER hidden Markov model ID' SubClassOf 'is identifier of' some 'Hidden Markov model'
http://edamontology.org/operation_0456
Nucleic acid melting profile plotting
'Nucleic acid melting profile plotting' SubClassOf 'has output' some 'Nucleic acid melting profile'
http://edamontology.org/operation_0453
Nucleosome formation potential prediction
'Nucleosome formation potential prediction' SubClassOf 'Obsolete concept (EDAM)'
'Nucleosome formation potential prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0459
Nucleic acid probability profile plotting
'Nucleic acid probability profile plotting' SubClassOf 'has output' some 'Nucleic acid probability profile'
http://edamontology.org/operation_0457
Nucleic acid stitch profile plotting
'Nucleic acid stitch profile plotting' SubClassOf 'has output' some 'Nucleic acid stitch profile'
http://edamontology.org/operation_0458
Nucleic acid melting curve plotting
'Nucleic acid melting curve plotting' SubClassOf 'has output' some 'Nucleic acid melting curve'
http://edamontology.org/data_1111
EMBOSS listfile
'EMBOSS listfile' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS listfile' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1110
EMBOSS sequence type
'EMBOSS sequence type' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS sequence type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1115
Sequence profile ID
'Sequence profile ID' SubClassOf 'is identifier of' some 'Sequence profile'
http://edamontology.org/data_1114
Sequence motif identifier
'Sequence motif identifier' SubClassOf 'is identifier of' some 'Sequence motif'
http://edamontology.org/operation_0452
Indel detection
'Indel detection' SubClassOf 'Mutation detection'
http://edamontology.org/operation_1781
Gene regulatory network analysis
'Gene regulatory network analysis' SubClassOf 'has topic' some 'Gene regulatory networks'
http://edamontology.org/data_1112
Sequence cluster ID
'Sequence cluster ID' SubClassOf 'is identifier of' some 'Sequence cluster'
http://edamontology.org/operation_1780
Sequence submission
'Sequence submission' SubClassOf 'Obsolete concept (EDAM)'
'Sequence submission' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000707
spotSegmentation
'spotSegmentation' SubClassOf 'is published by' value 'Bioconductor'
'spotSegmentation' SubClassOf 'implements' some 'clustering algorithm'
'spotSegmentation' SubClassOf 'software'
'spotSegmentation' SubClassOf 'is executed in' some 'background correction'
'spotSegmentation' SubClassOf 'is encoded in' some 'R language'
'spotSegmentation' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'spotSegmentation' SubClassOf 'has specified data output' some 'Graph plot'
'spotSegmentation' SubClassOf 'BioConductor Software'
'spotSegmentation' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/maturity/SWO_9000066
Obsolete
DisjointClasses: 'alpha', 'beta', 'Release candidate', 'Live', 'Obsolete'
'Obsolete' DisjointWith 'Maintained'
http://www.ebi.ac.uk/efo/swo/SWO_0000705
splicegear
'splicegear' SubClassOf 'is encoded in' some 'R language'
'splicegear' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'splicegear' SubClassOf 'is published by' value 'Bioconductor'
'splicegear' SubClassOf 'software'
'splicegear' SubClassOf 'has specified data input' some ('has format specification' only 'XML')
'splicegear' SubClassOf 'R software'
'splicegear' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/swo/maturity/SWO_9000065
Live
DisjointClasses: 'alpha', 'beta', 'Release candidate', 'Live', 'Obsolete'
http://www.ebi.ac.uk/efo/swo/SWO_0000706
splots
'splots' SubClassOf 'is published by' value 'Bioconductor'
'splots' SubClassOf 'is encoded in' some 'R language'
'splots' SubClassOf 'has specified data output' some 'Graph plot'
'splots' SubClassOf 'software'
'splots' SubClassOf 'is executed in' some 'data visualization'
'splots' SubClassOf 'has specified data input' some ('has format specification' only 'chamber slide format')
'splots' SubClassOf 'R software'
'splots' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/swo/maturity/SWO_9000064
Release candidate
DisjointClasses: 'alpha', 'beta', 'Release candidate', 'Live', 'Obsolete'
http://www.ebi.ac.uk/efo/swo/SWO_0000703
spikeLI
'spikeLI' SubClassOf 'has specified data input' some 'Gene expression dataset'
'spikeLI' SubClassOf 'software'
'spikeLI' SubClassOf 'is encoded in' some 'R language'
'spikeLI' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'spikeLI' SubClassOf 'implements' some 'Langmuir Isotherm'
'spikeLI' SubClassOf 'has specified data output' some 'Graph plot'
'spikeLI' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/maturity/SWO_9000063
beta
DisjointClasses: 'alpha', 'beta', 'Release candidate', 'Live', 'Obsolete'
http://www.ebi.ac.uk/efo/swo/SWO_0000704
spkTools
'spkTools' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'spkTools' SubClassOf 'software'
'spkTools' SubClassOf 'implements' some
('Average log expression across arrays (ALE)' and ''ANOVA'')
'spkTools' SubClassOf 'is encoded in' some 'R language'
'spkTools' SubClassOf 'has specified data input' some 'Gene expression dataset'
'spkTools' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/maturity/SWO_9000062
alpha
DisjointClasses: 'alpha', 'beta', 'Release candidate', 'Live', 'Obsolete'
http://www.ebi.ac.uk/efo/swo/SWO_0000701
snpMatrix
'snpMatrix' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'snpMatrix' SubClassOf 'software'
'snpMatrix' SubClassOf 'is published by' value 'Bioconductor'
'snpMatrix' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'snpMatrix' SubClassOf 'is encoded in' some 'R language'
'snpMatrix' SubClassOf 'is executed in' some
('data visualization' and 'descriptive statistical calculation')
'snpMatrix' SubClassOf 'implements' some 'Chi-square'
'snpMatrix' SubClassOf 'R software'
'snpMatrix' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000700
snapCGH
'snapCGH' SubClassOf 'is executed in' some
('data visualization' and 'correction')
'snapCGH' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'snapCGH' SubClassOf 'implements' some 'Hidden Markov Model'
'snapCGH' SubClassOf 'has specified data input' some 'Text data set'
'snapCGH' SubClassOf 'is published by' value 'Bioconductor'
'snapCGH' SubClassOf 'software'
'snapCGH' SubClassOf 'is encoded in' some 'R language'
'snapCGH' SubClassOf 'BioConductor Software'
'snapCGH' SubClassOf 'R software'
http://edamontology.org/data_1122
Phylogenetic tree type
'Phylogenetic tree type' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic tree type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1121
BLAST sequence alignment type
'BLAST sequence alignment type' SubClassOf 'Obsolete concept (EDAM)'
'BLAST sequence alignment type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1120
Sequence alignment type
'Sequence alignment type' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1126
Comparison matrix name
'Comparison matrix name' SubClassOf 'is identifier of' some 'Comparison matrix'
http://edamontology.org/data_1125
Comparison matrix type
'Comparison matrix type' SubClassOf 'Obsolete concept (EDAM)'
'Comparison matrix type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2807
Tool topic
'Tool topic' SubClassOf 'Obsolete concept (EDAM)'
'Tool topic' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2809
Study topic
'Study topic' SubClassOf 'Obsolete concept (EDAM)'
'Study topic' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000718
tkWidgets
'tkWidgets' SubClassOf 'software'
'tkWidgets' SubClassOf 'is encoded in' some 'R language'
'tkWidgets' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000719
topGO
'topGO' SubClassOf 'has specified data input' some 'Gene list'
'topGO' SubClassOf 'implements' some 'Kolmogorov Smirnov rank-sum based algorithm'
'topGO' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'topGO' SubClassOf 'is encoded in' some 'R language'
'topGO' SubClassOf 'software'
'topGO' SubClassOf 'is published by' value 'Bioconductor'
'topGO' SubClassOf 'is executed in' some 'differential expression analysis'
'topGO' SubClassOf 'R software'
'topGO' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000716
tilingArray
'tilingArray' SubClassOf 'is published by' value 'Bioconductor'
'tilingArray' SubClassOf 'software'
'tilingArray' SubClassOf 'has specified data input' some ('has format specification' only 'CEL binary format')
'tilingArray' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'tilingArray' SubClassOf 'is executed in' some
('data visualization' and 'background correction' and 'data normalization')
'tilingArray' SubClassOf 'is encoded in' some 'R language'
'tilingArray' SubClassOf 'BioConductor Software'
'tilingArray' SubClassOf 'R software'
http://edamontology.org/format_1228
UniGene entry format
'UniGene entry format' SubClassOf 'Obsolete concept (EDAM)'
'UniGene entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000717
timecourse
'timecourse' SubClassOf 'implements' some 'RMA'
'timecourse' SubClassOf 'has specified data output' some ('has format specification' only 'CEL binary format')
'timecourse' SubClassOf 'is encoded in' some 'R language'
'timecourse' SubClassOf 'has specified data input' some 'Gene expression dataset'
'timecourse' SubClassOf 'is published by' value 'Bioconductor'
'timecourse' SubClassOf 'software'
'timecourse' SubClassOf 'R software'
'timecourse' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000714
stepNorm
'stepNorm' SubClassOf 'has specified data input' some 'Gene expression data'
'stepNorm' SubClassOf 'is executed in' some 'data normalization'
'stepNorm' SubClassOf 'has specified data output' some 'Gene expression data'
'stepNorm' SubClassOf 'is encoded in' some 'R language'
'stepNorm' SubClassOf 'software'
'stepNorm' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000712
stam
'stam' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'stam' SubClassOf 'is encoded in' some 'R language'
'stam' SubClassOf 'is executed in' some
('data annotation' and 'cross validation')
'stam' SubClassOf 'software'
'stam' SubClassOf 'has specified data input' some 'Gene expression data'
'stam' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000710
sscore
'sscore' SubClassOf 'is published by' value 'Bioconductor'
'sscore' SubClassOf 'software'
'sscore' SubClassOf 'has specified data input' some ('has format specification' only 'CEL binary format')
'sscore' SubClassOf 'implements' some 'S-Score algorithm'
'sscore' SubClassOf 'is encoded in' some 'R language'
'sscore' SubClassOf 'has specified data input' some 'Gene expression dataset'
'sscore' SubClassOf 'R software'
'sscore' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000711
ssize
'ssize' SubClassOf 'software'
'ssize' SubClassOf 'implements' some 'RMA'
'ssize' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'ssize' SubClassOf 'is published by' value 'Bioconductor'
'ssize' SubClassOf 'is executed in' some 'data visualization'
'ssize' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'ssize' SubClassOf 'is encoded in' some 'R language'
'ssize' SubClassOf 'R software'
'ssize' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000720
tspair
'tspair' SubClassOf 'is encoded in' some 'R language'
'tspair' SubClassOf 'is executed in' some
('cross validation' and 'descriptive statistical calculation')
'tspair' SubClassOf 'is published by' value 'Bioconductor'
'tspair' SubClassOf 'has specified data input' some 'Gene expression dataset'
'tspair' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'tspair' SubClassOf 'software'
'tspair' SubClassOf 'BioConductor Software'
'tspair' SubClassOf 'R software'
http://edamontology.org/operation_3545
Mathematical modelling
'Mathematical modelling' SubClassOf 'Modelling and simulation'
'Mathematical modelling' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1133
InterPro accession
'InterPro accession' SubClassOf 'is identifier of' some 'Protein signature'
http://edamontology.org/data_1132
InterPro entry name
'InterPro entry name' SubClassOf 'is identifier of' some 'Protein signature'
http://edamontology.org/data_1134
InterPro secondary accession
'InterPro secondary accession' SubClassOf 'is identifier of' some 'Protein signature'
http://edamontology.org/topic_2817
Yeast
'Yeast' SubClassOf 'Obsolete concept (EDAM)'
'Yeast' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2542
Protein features (domains) format
'Protein features (domains) format' SubClassOf 'Obsolete concept (EDAM)'
'Protein features (domains) format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2816
Gene resources
'Gene resources' SubClassOf 'Obsolete concept (EDAM)'
'Gene resources' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2815
Humans
'Humans' SubClassOf 'Obsolete concept (EDAM)'
'Humans' SubClassOf 'Vertebrates'
http://www.ebi.ac.uk/efo/swo/SWO_0000729
xcms
'xcms' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'xcms' SubClassOf 'software'
'xcms' SubClassOf 'is encoded in' some 'R language'
'xcms' SubClassOf 'is published by' value 'Bioconductor'
'xcms' SubClassOf 'has specified data input' some 'LC-MS data'
'xcms' SubClassOf 'R software'
'xcms' SubClassOf 'BioConductor Software'
http://edamontology.org/format_2548
Sequence feature table format
'Sequence feature table format' SubClassOf 'is format of' some 'Sequence features'
http://www.ebi.ac.uk/efo/swo/SWO_0000727
webbioc
'webbioc' SubClassOf 'is encoded in' some 'R language'
'webbioc' SubClassOf 'implements' some 'Multiple testing'
'webbioc' SubClassOf 'software'
'webbioc' SubClassOf 'has specified data output' some 'HTML report'
'webbioc' SubClassOf 'has specified data input' some ('has format specification' only 'CEL binary format')
'webbioc' SubClassOf 'is published by' value 'Bioconductor'
'webbioc' SubClassOf 'R software'
'webbioc' SubClassOf 'BioConductor Software'
http://edamontology.org/format_2547
uniprotkb-like format
'uniprotkb-like format' SubClassOf 'Sequence feature table format (text)'
'uniprotkb-like format' SubClassOf 'Sequence feature table format'
http://www.ebi.ac.uk/efo/swo/SWO_0000728
widgetTools
'widgetTools' SubClassOf 'is encoded in' some 'R language'
'widgetTools' SubClassOf 'software'
'widgetTools' SubClassOf 'has specified data input' some 'Text data set'
'widgetTools' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000725
vsn
'vsn' SubClassOf 'software'
'vsn' SubClassOf 'has specified data input' some 'Gene expression dataset'
'vsn' SubClassOf 'is executed in' some
('correction' and 'data normalization' and 'differential expression analysis')
'vsn' SubClassOf 'is encoded in' some 'R language'
'vsn' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000726
weaver
'weaver' SubClassOf 'is published by' value 'Bioconductor'
'weaver' SubClassOf 'has specified data input' some ('has format specification' only 'Rnw')
'weaver' SubClassOf 'has specified data output' some ('has format specification' only 'Rnw')
'weaver' SubClassOf 'software'
'weaver' SubClassOf 'is encoded in' some 'R language'
'weaver' SubClassOf 'R software'
'weaver' SubClassOf 'BioConductor Software'
http://edamontology.org/topic_2814
Protein structure analysis
'Protein structure analysis' SubClassOf 'Proteins'
http://www.ebi.ac.uk/efo/swo/SWO_0000723
vbmp
'vbmp' SubClassOf 'is encoded in' some 'R language'
'vbmp' SubClassOf 'implements' some 'Multinomial probit regression with Gaussian Process priors'
'vbmp' SubClassOf 'software'
'vbmp' SubClassOf 'is executed in' some 'cross validation'
'vbmp' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'vbmp' SubClassOf 'is published by' value 'Bioconductor'
'vbmp' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'vbmp' SubClassOf 'BioConductor Software'
'vbmp' SubClassOf 'R software'
http://edamontology.org/topic_2813
Disease genes and proteins
'Disease genes and proteins' SubClassOf 'Obsolete concept (EDAM)'
'Disease genes and proteins' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000721
twilight
'twilight' SubClassOf 'software'
'twilight' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'twilight' SubClassOf 'has specified data input' some 'Gene expression dataset'
'twilight' SubClassOf 'implements' some
('Pearson correlation estimator' and ''t-test'')
'twilight' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'twilight' SubClassOf 'is encoded in' some 'R language'
'twilight' SubClassOf 'is published by' value 'Bioconductor'
'twilight' SubClassOf 'BioConductor Software'
'twilight' SubClassOf 'R software'
http://edamontology.org/topic_2811
Nomenclature
'Nomenclature' SubClassOf 'Obsolete concept (EDAM)'
'Nomenclature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0488
Linkage disequilibrium calculation
'Linkage disequilibrium calculation' SubClassOf 'has output' some 'Genetic linkage report'
http://www.ebi.ac.uk/efo/swo/SWO_0000730
xps
'xps' SubClassOf 'is published by' value 'Bioconductor'
'xps' SubClassOf 'is encoded in' some 'R language'
'xps' SubClassOf 'has specified data input' some ('has format specification' only 'CEL binary format')
'xps' SubClassOf 'implements' some
('DFW' and 'FARMS' and 'RMA' and ''MAS5'')
'xps' SubClassOf 'software'
'xps' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'xps' SubClassOf 'BioConductor Software'
'xps' SubClassOf 'R software'
http://edamontology.org/operation_0489
Genetic code prediction
'Genetic code prediction' SubClassOf 'has output' some 'Genetic code'
http://www.ebi.ac.uk/efo/swo/SWO_0000731
yaqcaffy
'yaqcaffy' SubClassOf 'has specified data output' some 'Graph plot'
'yaqcaffy' SubClassOf 'is encoded in' some 'R language'
'yaqcaffy' SubClassOf 'software'
'yaqcaffy' SubClassOf 'has specified data input' some 'Gene expression dataset'
'yaqcaffy' SubClassOf 'R software'
http://edamontology.org/operation_0486
Functional mapping
'Functional mapping' SubClassOf 'Obsolete concept (EDAM)'
'Functional mapping' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0487
Haplotype mapping
'Haplotype mapping' SubClassOf 'has output' some 'Haplotype map'
http://edamontology.org/operation_0484
SNP detection
'SNP detection' SubClassOf 'Nucleic acid sequence feature detection'
http://edamontology.org/operation_0485
Radiation Hybrid Mapping
'Radiation Hybrid Mapping' SubClassOf 'has output' some 'Radiation hybrid map'
http://edamontology.org/operation_0482
Protein-ligand docking
'Protein-ligand docking' SubClassOf 'has output' some 'Protein-ligand complex'
'Protein-ligand docking' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/operation_0483
Structured RNA prediction and optimisation
'Structured RNA prediction and optimisation' SubClassOf 'has topic' some 'Nucleic acid structure prediction'
'Structured RNA prediction and optimisation' SubClassOf 'has output' some 'Sequence set (nucleic acid)'
http://edamontology.org/topic_2829
Ontologies, nomenclature and classification
'Ontologies, nomenclature and classification' SubClassOf 'Obsolete concept (EDAM)'
'Ontologies, nomenclature and classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2826
Protein structure alignment
'Protein structure alignment' SubClassOf 'Obsolete concept (EDAM)'
'Protein structure alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2571
Raw sequence format
'Raw sequence format' SubClassOf 'is format of' some 'Raw sequence'
http://edamontology.org/format_1247
COG sequence cluster format
'COG sequence cluster format' SubClassOf 'Obsolete concept (EDAM)'
'COG sequence cluster format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0499
Tree-based sequence alignment
'Tree-based sequence alignment' SubClassOf 'has topic' some 'Phylogeny'
http://edamontology.org/operation_0498
Consensus-based sequence alignment
'Consensus-based sequence alignment' SubClassOf 'Sequence alignment generation'
'Consensus-based sequence alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0491
Pairwise sequence alignment
'Pairwise sequence alignment' SubClassOf 'Multiple sequence alignment'
'Pairwise sequence alignment' SubClassOf 'has output' some 'Sequence alignment (pair)'
'Pairwise sequence alignment' SubClassOf 'Sequence alignment generation'
http://edamontology.org/data_1152
HIVDB identifier
'HIVDB identifier' SubClassOf 'Obsolete concept (EDAM)'
'HIVDB identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0490
Dotplot plotting
'Dotplot plotting' SubClassOf 'Sequence alignment visualisation'
'Dotplot plotting' SubClassOf 'has output' some 'Dotplot'
'Dotplot plotting' SubClassOf 'Sequence visualisation'
http://edamontology.org/operation_0493
Pairwise sequence alignment generation (local)
'Pairwise sequence alignment generation (local)' SubClassOf 'Obsolete concept (EDAM)'
'Pairwise sequence alignment generation (local)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1156
Pathway ID (aMAZE)
'Pathway ID (aMAZE)' SubClassOf 'Obsolete concept (EDAM)'
'Pathway ID (aMAZE)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0494
Pairwise sequence alignment generation (global)
'Pairwise sequence alignment generation (global)' SubClassOf 'Obsolete concept (EDAM)'
'Pairwise sequence alignment generation (global)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2562
Amino acid identifier format
'Amino acid identifier format' SubClassOf 'Obsolete concept (EDAM)'
'Amino acid identifier format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2839
Molecules
'Molecules' SubClassOf 'Obsolete concept (EDAM)'
'Molecules' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1150
Disease ID
'Disease ID' SubClassOf 'is identifier of' some 'Disease report'
'Disease ID' SubClassOf 'Identifier (typed)'
'Disease ID' SubClassOf 'Accession'
'Disease ID' SubClassOf http://edamontology.org/data_3667
http://edamontology.org/format_2560
STRING entry format
'STRING entry format' SubClassOf 'Obsolete concept (EDAM)'
'STRING entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2830
Immunoproteins, genes and antigens
'Immunoproteins, genes and antigens' SubClassOf 'Protein families'
'Immunoproteins, genes and antigens' SubClassOf 'Gene families'
http://edamontology.org/operation_2246
Demonstration
'Demonstration' SubClassOf 'Obsolete concept (EDAM)'
'Demonstration' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2241
Transmembrane protein visualisation
'Transmembrane protein visualisation' SubClassOf 'Protein secondary structure rendering'
'Transmembrane protein visualisation' SubClassOf 'has output' some 'Protein structure image'
'Transmembrane protein visualisation' SubClassOf 'Structure visualisation'
http://edamontology.org/data_1164
MIRIAM URI
'MIRIAM URI' SubClassOf 'is identifier of' some 'Database metadata'
http://edamontology.org/data_1163
MIRIAM data type name
'MIRIAM data type name' SubClassOf 'is identifier of' some 'Database metadata'
http://edamontology.org/correlation_3465
Correlation
'Correlation' SubClassOf 'Analysis'
'Correlation' SubClassOf 'has topic' some 'Proteomics'
http://edamontology.org/data_1162
MIRIAM identifier
'MIRIAM identifier' SubClassOf 'is identifier of' some 'Database metadata'
http://edamontology.org/topic_2842
High-throughput sequencing
'High-throughput sequencing' SubClassOf 'Obsolete concept (EDAM)'
'High-throughput sequencing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2847
Disease (specific)
'Disease (specific)' SubClassOf 'Obsolete concept (EDAM)'
'Disease (specific)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2846
Gene regulatory networks
'Gene regulatory networks' SubClassOf 'Gene regulation'
'Gene regulatory networks' SubClassOf 'Molecular interactions, pathways and networks'
'Gene regulatory networks' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2844
Structural clustering
'Structural clustering' SubClassOf 'Obsolete concept (EDAM)'
'Structural clustering' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3033
Matrix format
'Matrix format' SubClassOf 'is format of' some 'Matrix'
http://edamontology.org/operation_2224
Data retrieval (ontology concept)
'Data retrieval (ontology concept)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (ontology concept)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2222
Data retrieval (ontology annotation)
'Data retrieval (ontology annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (ontology annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0203
Gene expression
'Gene expression' SubClassOf 'Genetics'
'Gene expression' SubClassOf 'Molecular genetics'
http://edamontology.org/topic_0200
Microarrays
'Microarrays' SubClassOf 'Obsolete concept (EDAM)'
'Microarrays' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2869
RFLP
'RFLP' SubClassOf 'DNA polymorphism'
'RFLP' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2868
Microsatellites
'Microsatellites' SubClassOf 'DNA polymorphism'
'Microsatellites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2867
VNTR
'VNTR' SubClassOf 'DNA polymorphism'
'VNTR' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2237
Data retrieval (sequence profile)
'Data retrieval (sequence profile)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (sequence profile)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0210
Fish
'Fish' SubClassOf 'Obsolete concept (EDAM)'
'Fish' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2239
3D-1D scoring matrix generation
'3D-1D scoring matrix generation' SubClassOf 'has topic' some 'Structure comparison'
'3D-1D scoring matrix generation' SubClassOf 'has output' some '3D-1D scoring matrix'
http://edamontology.org/operation_2234
Structure file processing
'Structure file processing' SubClassOf 'Obsolete concept (EDAM)'
'Structure file processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2233
Representative sequence identification
'Representative sequence identification' SubClassOf 'has topic' some 'Sequence comparison'
http://edamontology.org/topic_0213
Mice or rats
'Mice or rats' SubClassOf 'Obsolete concept (EDAM)'
'Mice or rats' SubClassOf 'Vertebrates'
http://edamontology.org/topic_0211
Flies
'Flies' SubClassOf 'Obsolete concept (EDAM)'
'Flies' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0217
Literature analysis
'Literature analysis' SubClassOf 'Obsolete concept (EDAM)'
'Literature analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0218
Data mining
'Data mining' SubClassOf 'Computer science'
http://edamontology.org/topic_0215
Worms
'Worms' SubClassOf 'Obsolete concept (EDAM)'
'Worms' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0220
File management
'File management' SubClassOf 'Data management'
'File management' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0221
Sequence annotation
'Sequence annotation' SubClassOf 'Obsolete concept (EDAM)'
'Sequence annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0222
Genome annotation
'Genome annotation' SubClassOf 'Obsolete concept (EDAM)'
'Genome annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2265
Data retrieval (identifier)
'Data retrieval (identifier)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (identifier)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2264
Data retrieval (pathway or network)
'Data retrieval (pathway or network)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (pathway or network)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0143
Protein structure comparison
'Protein structure comparison' SubClassOf 'Obsolete concept (EDAM)'
'Protein structure comparison' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0144
Protein residue interactions
'Protein residue interactions' SubClassOf 'Obsolete concept (EDAM)'
'Protein residue interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0141
Protein cleavage sites and proteolysis
'Protein cleavage sites and proteolysis' SubClassOf 'Obsolete concept (EDAM)'
'Protein cleavage sites and proteolysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0147
Protein-protein interactions
'Protein-protein interactions' SubClassOf 'Obsolete concept (EDAM)'
'Protein-protein interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0148
Protein-ligand interactions
'Protein-ligand interactions' SubClassOf 'Obsolete concept (EDAM)'
'Protein-ligand interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0149
Protein-nucleic acid interactions
'Protein-nucleic acid interactions' SubClassOf 'Obsolete concept (EDAM)'
'Protein-nucleic acid interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0150
Protein design
'Protein design' SubClassOf 'Obsolete concept (EDAM)'
'Protein design' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0151
G protein-coupled receptors (GPCR)
'G protein-coupled receptors (GPCR)' SubClassOf 'Obsolete concept (EDAM)'
'G protein-coupled receptors (GPCR)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0154
Small molecules
'Small molecules' SubClassOf 'Biochemistry'
'Small molecules' SubClassOf 'Structure analysis'
http://edamontology.org/topic_0152
Carbohydrates
'Carbohydrates' SubClassOf 'Biochemistry'
'Carbohydrates' SubClassOf 'Structure analysis'
http://edamontology.org/topic_0153
Lipids
'Lipids' SubClassOf 'Biochemistry'
'Lipids' SubClassOf 'Structure analysis'
http://edamontology.org/topic_0158
Sequence motifs
'Sequence motifs' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motifs' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0159
Sequence comparison
'Sequence comparison' SubClassOf 'Sequence analysis'
'Sequence comparison' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0156
Sequence editing
'Sequence editing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence editing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0160
Sequence sites, features and motifs
'Sequence sites, features and motifs' SubClassOf 'Sequence analysis'
'Sequence sites, features and motifs' SubClassOf 'Computational biology'
http://edamontology.org/topic_0166
Protein structural motifs and surfaces
'Protein structural motifs and surfaces' SubClassOf 'Protein sites, features and motifs'
http://edamontology.org/topic_0163
Sequence database search
'Sequence database search' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0164
Sequence clustering
'Sequence clustering' SubClassOf 'Obsolete concept (EDAM)'
'Sequence clustering' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0167
Structural (3D) profiles
'Structural (3D) profiles' SubClassOf 'Obsolete concept (EDAM)'
'Structural (3D) profiles' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0172
Protein structure prediction
'Protein structure prediction' SubClassOf 'Structure prediction'
'Protein structure prediction' SubClassOf 'Protein structure analysis'
'Protein structure prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0173
Nucleic acid structure prediction
'Nucleic acid structure prediction' SubClassOf 'Structure prediction'
'Nucleic acid structure prediction' SubClassOf 'Nucleic acid structure analysis'
'Nucleic acid structure prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0177
Molecular docking
'Molecular docking' SubClassOf 'Structure prediction'
'Molecular docking' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0174
Ab initio structure prediction
'Ab initio structure prediction' SubClassOf 'Obsolete concept (EDAM)'
'Ab initio structure prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0175
Homology modelling
'Homology modelling' SubClassOf 'Obsolete concept (EDAM)'
'Homology modelling' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1906
Quantitative trait locus
'Quantitative trait locus' SubClassOf 'Obsolete concept (EDAM)'
'Quantitative trait locus' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0178
Protein secondary structure prediction
'Protein secondary structure prediction' SubClassOf 'Obsolete concept (EDAM)'
'Protein secondary structure prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0179
Protein tertiary structure prediction
'Protein tertiary structure prediction' SubClassOf 'Obsolete concept (EDAM)'
'Protein tertiary structure prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0183
Structure alignment
'Structure alignment' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0184
Threading
'Threading' SubClassOf 'Obsolete concept (EDAM)'
'Threading' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0182
Sequence alignment
'Sequence alignment' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0188
Sequence profiles and HMMs
'Sequence profiles and HMMs' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profiles and HMMs' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0180
Protein fold recognition
'Protein fold recognition' SubClassOf 'Structure prediction'
'Protein fold recognition' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1916
Alignment
'Alignment' SubClassOf 'data'
'Alignment' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/topic_0195
Virtual PCR
'Virtual PCR' SubClassOf 'Obsolete concept (EDAM)'
'Virtual PCR' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0199
Genetic variation
'Genetic variation' SubClassOf 'Nucleic acid sites, features and motifs'
'Genetic variation' SubClassOf 'Genotype and phenotype'
'Genetic variation' SubClassOf 'Molecular genetics'
http://edamontology.org/topic_0191
Phylogeny reconstruction
'Phylogeny reconstruction' SubClassOf 'Obsolete concept (EDAM)'
'Phylogeny reconstruction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/software_before_Microsoft_2007
software before Microsoft 2007
'software before Microsoft 2007' EquivalentTo 'software' and ('has version' some
('version name' and ('followed by' value 'Microsoft 2007 version')))
http://purl.obolibrary.org/obo/BFO_0000007
process
'process' DisjointWith 'Obsolete concept (EDAM)'
http://edamontology.org/operation_0422
Protein cleavage site prediction
'Protein cleavage site prediction' SubClassOf 'has topic' some 'Proteomics'
http://edamontology.org/operation_0423
Epitope mapping (MHC Class I)
'Epitope mapping (MHC Class I)' SubClassOf 'Obsolete concept (EDAM)'
'Epitope mapping (MHC Class I)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0420
Protein-nucleic acid binding prediction
'Protein-nucleic acid binding prediction' SubClassOf 'Protein binding site prediction (from sequence)'
'Protein-nucleic acid binding prediction' SubClassOf 'Protein binding site prediction'
http://edamontology.org/topic_3295
Epigenetics
'Epigenetics' SubClassOf 'Molecular genetics'
'Epigenetics' SubClassOf 'Genetics'
http://edamontology.org/operation_0426
Gene component prediction
'Gene component prediction' SubClassOf 'Gene prediction'
'Gene component prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0424
Epitope mapping (MHC Class II)
'Epitope mapping (MHC Class II)' SubClassOf 'Obsolete concept (EDAM)'
'Epitope mapping (MHC Class II)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0425
Whole gene prediction
'Whole gene prediction' SubClassOf 'Gene prediction'
'Whole gene prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3298
Phenomics
'Phenomics' SubClassOf 'Omics'
http://edamontology.org/operation_0419
Protein binding site prediction (from sequence)
'Protein binding site prediction (from sequence)' SubClassOf 'Protein binding site prediction'
'Protein binding site prediction (from sequence)' SubClassOf 'Protein sequence feature detection'
'Protein binding site prediction (from sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0417
Protein post-translation modification site prediction
'Protein post-translation modification site prediction' SubClassOf 'has topic' some 'Protein modifications'
http://edamontology.org/operation_0418
Protein signal peptide detection
'Protein signal peptide detection' SubClassOf 'has topic' some 'Protein targeting and localization'
http://edamontology.org/operation_0433
Splice site prediction
'Splice site prediction' SubClassOf 'has topic' some 'Gene structure'
http://edamontology.org/operation_0434
Integrated gene prediction
'Integrated gene prediction' SubClassOf 'Whole gene prediction'
'Integrated gene prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_0431
Restriction site recognition
'Restriction site recognition' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/operation_0437
Selenocysteine insertion sequence (SECIS) prediction
'Selenocysteine insertion sequence (SECIS) prediction' SubClassOf 'Gene component prediction'
'Selenocysteine insertion sequence (SECIS) prediction' SubClassOf 'has output' some 'Gene report'
'Selenocysteine insertion sequence (SECIS) prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_0438
Regulatory element prediction
'Regulatory element prediction' SubClassOf 'has topic' some 'Transcription factors and regulatory sites'
'Regulatory element prediction' SubClassOf 'Gene component prediction'
'Regulatory element prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_1768
Nucleic acid folding family identification
'Nucleic acid folding family identification' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid folding family identification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0435
Operon prediction
'Operon prediction' SubClassOf 'Whole gene prediction'
'Operon prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_0436
Coding region prediction
'Coding region prediction' SubClassOf 'Gene component prediction'
'Coding region prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_0430
CpG island and isochore detection
'CpG island and isochore detection' SubClassOf 'has topic' some 'Sequence composition, complexity and repeats'
http://edamontology.org/operation_0429
Quadruplex formation site detection
'Quadruplex formation site detection' SubClassOf 'has topic' some 'Nucleic acid structure prediction'
'Quadruplex formation site detection' SubClassOf 'has output' some 'Nucleic acid structure report'
http://edamontology.org/operation_0400
Protein pH-dependent property calculation
'Protein pH-dependent property calculation' SubClassOf 'has output' some 'Protein property'
'Protein pH-dependent property calculation' SubClassOf 'has topic' some 'Protein properties'
http://edamontology.org/operation_0401
Protein hydropathy calculation (from sequence)
'Protein hydropathy calculation (from sequence)' SubClassOf 'Protein sequence analysis'
'Protein hydropathy calculation (from sequence)' SubClassOf 'Protein hydropathy calculation'
'Protein hydropathy calculation (from sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0404
Protein hydrogen exchange rate calculation
'Protein hydrogen exchange rate calculation' SubClassOf 'has output' some 'Protein hydrogen exchange rate'
http://edamontology.org/operation_0405
Protein hydrophobic region calculation
'Protein hydrophobic region calculation' SubClassOf 'Protein hydropathy calculation (from sequence)'
'Protein hydrophobic region calculation' SubClassOf 'Protein hydropathy calculation'
http://edamontology.org/operation_0402
Protein titration curve plotting
'Protein titration curve plotting' SubClassOf 'has output' some 'Protein titration curve'
http://edamontology.org/operation_0403
Protein isoelectric point calculation
'Protein isoelectric point calculation' SubClassOf 'has output' some 'Protein isoelectric point'
http://edamontology.org/operation_0410
Protein crystallizability prediction
'Protein crystallizability prediction' SubClassOf 'has output' some 'Protein crystallizability'
'Protein crystallizability prediction' SubClassOf 'Protein hydropathy calculation (from sequence)'
'Protein crystallizability prediction' SubClassOf 'Protein hydropathy calculation'
http://edamontology.org/operation_0415
Nucleic acid feature detection
'Nucleic acid feature detection' SubClassOf 'has output' some 'Nucleic acid features'
'Nucleic acid feature detection' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/operation_0416
Epitope mapping
'Epitope mapping' SubClassOf 'has topic' some 'Immunology'
http://edamontology.org/operation_0413
MHC peptide immunogenicity prediction
'MHC peptide immunogenicity prediction' SubClassOf 'Peptide immunogenicity prediction'
'MHC peptide immunogenicity prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0414
Protein feature prediction (from sequence)
'Protein feature prediction (from sequence)' SubClassOf 'Obsolete concept (EDAM)'
'Protein feature prediction (from sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2400
Toxin annotation
'Toxin annotation' SubClassOf 'Obsolete concept (EDAM)'
'Toxin annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2401
Protein report (membrane protein)
'Protein report (membrane protein)' SubClassOf 'Obsolete concept (EDAM)'
'Protein report (membrane protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2402
Protein-drug interaction report
'Protein-drug interaction report' SubClassOf 'Protein structure report'
'Protein-drug interaction report' SubClassOf 'Protein-ligand interaction report'
'Protein-drug interaction report' SubClassOf 'Drug report'
'Protein-drug interaction report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0408
Protein globularity prediction
'Protein globularity prediction' SubClassOf 'has output' some 'Protein globularity'
'Protein globularity prediction' SubClassOf 'Protein hydropathy calculation (from sequence)'
'Protein globularity prediction' SubClassOf 'Protein hydropathy calculation'
http://edamontology.org/operation_0409
Protein solubility prediction
'Protein solubility prediction' SubClassOf 'has output' some 'Protein solubility'
'Protein solubility prediction' SubClassOf 'Protein hydropathy calculation (from sequence)'
'Protein solubility prediction' SubClassOf 'Protein hydropathy calculation'
http://edamontology.org/operation_0406
Protein aliphatic index calculation
'Protein aliphatic index calculation' SubClassOf 'Protein hydropathy calculation (from sequence)'
'Protein aliphatic index calculation' SubClassOf 'has output' some 'Protein aliphatic index'
'Protein aliphatic index calculation' SubClassOf 'Protein hydropathy calculation'
http://edamontology.org/operation_0407
Protein hydrophobic moment plotting
'Protein hydrophobic moment plotting' SubClassOf 'Protein hydropathy calculation (from sequence)'
'Protein hydrophobic moment plotting' SubClassOf 'has output' some 'Peptide hydrophobic moment'
'Protein hydrophobic moment plotting' SubClassOf 'Protein hydropathy calculation'
http://edamontology.org/data_1688
EMBOSS vectorstrip log file
'EMBOSS vectorstrip log file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS vectorstrip log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1683
EMBOSS domainatrix log file
'EMBOSS domainatrix log file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS domainatrix log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1682
EMBOSS wordfinder log file
'EMBOSS wordfinder log file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS wordfinder log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1681
NACCESS log file
'NACCESS log file' SubClassOf 'Obsolete concept (EDAM)'
'NACCESS log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1680
STRIDE log file
'STRIDE log file' SubClassOf 'Obsolete concept (EDAM)'
'STRIDE log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1687
EMBOSS whichdb log file
'EMBOSS whichdb log file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS whichdb log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1686
EMBOSS megamerger log file
'EMBOSS megamerger log file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS megamerger log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1685
EMBOSS supermatcher error file
'EMBOSS supermatcher error file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS supermatcher error file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1684
EMBOSS sites log file
'EMBOSS sites log file' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS sites log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3327
BAI
'BAI' SubClassOf 'is format of' some 'Data index'
http://edamontology.org/format_3326
Data index format
'Data index format' SubClassOf 'is format of' some 'Data index'
http://edamontology.org/data_1694
Number of output entities
'Number of output entities' SubClassOf 'Obsolete concept (EDAM)'
'Number of output entities' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1693
Number of iterations
'Number of iterations' SubClassOf 'Obsolete concept (EDAM)'
'Number of iterations' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1696
Drug report
'Drug report' SubClassOf 'has topic' some 'Drugs and target structures'
http://edamontology.org/data_1695
Hit sort order
'Hit sort order' SubClassOf 'Obsolete concept (EDAM)'
'Hit sort order' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2014
Sequence-profile alignment format
'Sequence-profile alignment format' SubClassOf 'is format of' some 'Sequence-profile alignment'
http://edamontology.org/format_2013
Biological pathway or network format
'Biological pathway or network format' SubClassOf 'is format of' some 'Pathway or network'
http://edamontology.org/format_2015
Sequence-profile alignment (HMM) format
'Sequence-profile alignment (HMM) format' SubClassOf 'Obsolete concept (EDAM)'
'Sequence-profile alignment (HMM) format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2017
Amino acid index format
'Amino acid index format' SubClassOf 'is format of' some 'Amino acid index'
http://edamontology.org/format_2006
Phylogenetic tree format
'Phylogenetic tree format' SubClassOf 'is format of' some 'Phylogenetic tree'
http://edamontology.org/data_3426
Proteomics experiment report
'Proteomics experiment report' SubClassOf 'Obsolete concept (EDAM)'
'Proteomics experiment report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3427
RNAi report
'RNAi report' SubClassOf 'Obsolete concept (EDAM)'
'RNAi report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3428
Simulation experiment report
'Simulation experiment report' SubClassOf 'Obsolete concept (EDAM)'
'Simulation experiment report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1580
ProDom entry format
'ProDom entry format' SubClassOf 'Obsolete concept (EDAM)'
'ProDom entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1581
FSSP entry format
'FSSP entry format' SubClassOf 'Obsolete concept (EDAM)'
'FSSP entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2106
Reaction ID (BioCyc)
'Reaction ID (BioCyc)' SubClassOf 'has topic' some 'Peptides and amino acids'
http://edamontology.org/data_2108
Reaction ID
'Reaction ID' SubClassOf 'is identifier of' some 'Reaction data'
http://edamontology.org/data_2103
Gene name (KEGG GENES)
'Gene name (KEGG GENES)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (KEGG GENES)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2100
Type
'Type' SubClassOf 'Obsolete concept (EDAM)'
'Type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1571
InterPro entry abstract format
'InterPro entry abstract format' SubClassOf 'Obsolete concept (EDAM)'
'InterPro entry abstract format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1572
Gene3D entry format
'Gene3D entry format' SubClassOf 'Obsolete concept (EDAM)'
'Gene3D entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1573
PIRSF entry format
'PIRSF entry format' SubClassOf 'Obsolete concept (EDAM)'
'PIRSF entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1574
PRINTS entry format
'PRINTS entry format' SubClassOf 'Obsolete concept (EDAM)'
'PRINTS entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000608
macat
'macat' SubClassOf 'has specified data input' some 'Text data set'
'macat' SubClassOf 'implements' some
('Base-Pair-Distance Kernel' and 'Radial basis function' and 'k-nearest neighbour classification')
'macat' SubClassOf 'software'
'macat' SubClassOf 'is executed in' some
('distance calculation' and 'data visualization' and 'descriptive statistical calculation' and 'differential expression analysis')
'macat' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'macat' SubClassOf 'is encoded in' some 'R language'
'macat' SubClassOf 'R software'
http://edamontology.org/format_1570
InterPro entry format
'InterPro entry format' SubClassOf 'Obsolete concept (EDAM)'
'InterPro entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000609
made4
'made4' SubClassOf 'has specified data output' some
('Hierarchical clustering' and 'Graph plot')
'made4' SubClassOf 'software'
'made4' SubClassOf 'is encoded in' some 'R language'
'made4' SubClassOf 'has specified data input' some 'Gene expression dataset'
'made4' SubClassOf 'implements' some 'clustering algorithm'
'made4' SubClassOf 'R software'
http://edamontology.org/format_1579
TIGRFam entry format
'TIGRFam entry format' SubClassOf 'Obsolete concept (EDAM)'
'TIGRFam entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000606
maSigPro
'maSigPro' SubClassOf 'has specified data output' some
('Heatmap' and 'Gene list' and 'Graph plot')
'maSigPro' SubClassOf 'is encoded in' some 'R language'
'maSigPro' SubClassOf 'has specified data input' some 'Gene expression dataset'
'maSigPro' SubClassOf 'implements' some
(''FDR'' and 'Regression model')
'maSigPro' SubClassOf 'is executed in' some 'differential expression analysis'
'maSigPro' SubClassOf 'software'
'maSigPro' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000607
maanova
'maanova' SubClassOf 'is encoded in' some 'R language'
'maanova' SubClassOf 'implements' some
(''ANOVA'' and 'F test' and ''FDR'' and 'Bootstrap')
'maanova' SubClassOf 'has specified data input' some
('Text data set' or 'R data frame')
'maanova' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'maanova' SubClassOf 'software'
'maanova' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'maanova' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000604
maCorrPlot
'maCorrPlot' SubClassOf 'software'
'maCorrPlot' SubClassOf 'is encoded in' some 'R language'
'maCorrPlot' SubClassOf 'has specified data input' some ('has format specification' only
('mas5 format' or '.rma format'))
'maCorrPlot' SubClassOf 'is published by' value 'Bioconductor'
'maCorrPlot' SubClassOf 'is executed in' some
('data visualization' and 'background correction' and 'data normalization')
'maCorrPlot' SubClassOf 'has specified data output' some 'Graph plot'
'maCorrPlot' SubClassOf 'R software'
'maCorrPlot' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000605
maDB
'maDB' SubClassOf 'is published by' value 'Bioconductor'
'maDB' SubClassOf 'has specified data input' some 'Gene expression data'
'maDB' SubClassOf 'is encoded in' some 'R language'
'maDB' SubClassOf 'is executed in' some
('data visualization' and 'differential expression analysis')
'maDB' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'maDB' SubClassOf 'software'
'maDB' SubClassOf 'R software'
'maDB' SubClassOf 'BioConductor Software'
http://edamontology.org/format_1575
Panther Families and HMMs entry format
'Panther Families and HMMs entry format' SubClassOf 'Obsolete concept (EDAM)'
'Panther Families and HMMs entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1576
Pfam entry format
'Pfam entry format' SubClassOf 'Obsolete concept (EDAM)'
'Pfam entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000603
lumi
'lumi' SubClassOf 'software'
'lumi' SubClassOf 'is published by' value 'Bioconductor'
'lumi' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'lumi' SubClassOf 'has specified data input' some 'Text data set'
'lumi' SubClassOf 'implements' some 'Variance-stabilizing transformation (VST) algorithm'
'lumi' SubClassOf 'is encoded in' some 'R language'
'lumi' SubClassOf 'R software'
'lumi' SubClassOf 'BioConductor Software'
http://edamontology.org/format_1577
SMART entry format
'SMART entry format' SubClassOf 'Obsolete concept (EDAM)'
'SMART entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1578
Superfamily entry format
'Superfamily entry format' SubClassOf 'Obsolete concept (EDAM)'
'Superfamily entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000601
logitT
'logitT' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'logitT' SubClassOf 'is encoded in' some 'R language'
'logitT' SubClassOf 'is executed in' some 'differential expression analysis'
'logitT' SubClassOf 'implements' some
('Logit-t algorithm' and ''t-test'')
'logitT' SubClassOf 'is published by' value 'Bioconductor'
'logitT' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'logitT' SubClassOf 'software'
'logitT' SubClassOf 'R software'
'logitT' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000610
maigesPack
'maigesPack' SubClassOf 'implements' some
(''ANOVA'' and ''t-test'')
'maigesPack' SubClassOf 'is executed in' some
('data normalization' and 'descriptive statistical calculation' and 'differential expression analysis')
'maigesPack' SubClassOf 'is encoded in' some 'R language'
'maigesPack' SubClassOf 'has specified data output' some
('Image' and 'Clustered data set' and 'HTML report' and 'Graph plot')
'maigesPack' SubClassOf 'software'
'maigesPack' SubClassOf 'R software'
http://edamontology.org/data_2117
Map identifier
'Map identifier' SubClassOf 'is identifier of' some 'Map'
http://edamontology.org/data_3449
Cell migration track image
'Cell migration track image' SubClassOf 'has topic' some 'Cell biology'
http://edamontology.org/data_2119
Nucleic acid identifier
'Nucleic acid identifier' SubClassOf 'is identifier of' some 'Nucleic acid report'
http://edamontology.org/data_2116
Nucleic acid features (codon)
'Nucleic acid features (codon)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (codon)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2110
Molecular property identifier
'Molecular property identifier' SubClassOf 'is identifier of' some 'Molecular property'
http://edamontology.org/data_2111
Codon usage table ID
'Codon usage table ID' SubClassOf 'is identifier of' some 'Codon usage table'
'Codon usage table ID' SubClassOf 'is identifier of' some 'Genetic code'
http://edamontology.org/data_3442
MRI image
'MRI image' SubClassOf 'has topic' some 'Medical imaging'
http://www.ebi.ac.uk/efo/swo/SWO_0000619
metaArray
'metaArray' SubClassOf 'is encoded in' some 'R language'
'metaArray' SubClassOf 'is published by' value 'Bioconductor'
'metaArray' SubClassOf 'software'
'metaArray' SubClassOf 'implements' some 'Markov Chain Monte Carlo'
'metaArray' SubClassOf 'has specified data input' some 'Gene expression dataset'
'metaArray' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'metaArray' SubClassOf 'R software'
'metaArray' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000617
mdqc
'mdqc' SubClassOf 'has specified data output' some 'Graph plot'
'mdqc' SubClassOf 'software'
'mdqc' SubClassOf 'implements' some
('Multivariate correlation estimator' and 'clustering algorithm')
'mdqc' SubClassOf 'is encoded in' some 'R language'
'mdqc' SubClassOf 'has specified data input' some
('Text data set' and 'Gene expression dataset')
'mdqc' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000616
matchprobes
'matchprobes' SubClassOf 'has specified data output' some ('has format specification' only 'CDF binary format')
'matchprobes' SubClassOf 'is published by' value 'Bioconductor'
'matchprobes' SubClassOf 'software'
'matchprobes' SubClassOf 'is encoded in' some 'R language'
'matchprobes' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'R data frame' or 'CEL ASCII format'))
'matchprobes' SubClassOf 'R software'
'matchprobes' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000613
marray
'marray' SubClassOf 'implements' some 'Linear modelling'
'marray' SubClassOf 'is encoded in' some 'R language'
'marray' SubClassOf 'has specified data input' some
('Text data set' and 'Gene expression dataset')
'marray' SubClassOf 'is published by' value 'Bioconductor'
'marray' SubClassOf 'is executed in' some 'data normalization'
'marray' SubClassOf 'has specified data output' some
('Graph plot' or ('Text data set' and ('has format specification' only 'gpr format')))
'marray' SubClassOf 'software'
'marray' SubClassOf 'R software'
'marray' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000611
makePlatformDesign
'makePlatformDesign' SubClassOf 'is published by' value 'Bioconductor'
'makePlatformDesign' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'makePlatformDesign' SubClassOf 'software'
'makePlatformDesign' SubClassOf 'is encoded in' some 'R language'
'makePlatformDesign' SubClassOf 'has specified data input' some ('has format specification' only
('FASTA format' or 'CDF binary format' or 'CDF ASCII format'))
'makePlatformDesign' SubClassOf 'BioConductor Software'
'makePlatformDesign' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000612
makecdfenv
'makecdfenv' SubClassOf 'has specified data input' some ('has format specification' only
('CDF binary format' or 'CDF ASCII format'))
'makecdfenv' SubClassOf 'is published by' value 'Bioconductor'
'makecdfenv' SubClassOf 'software'
'makecdfenv' SubClassOf 'is encoded in' some 'R language'
'makecdfenv' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'makecdfenv' SubClassOf 'R software'
'makecdfenv' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000621
metahdep
'metahdep' SubClassOf 'has specified data input' some 'Gene expression dataset'
'metahdep' SubClassOf 'is published by' value 'Bioconductor'
'metahdep' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'metahdep' SubClassOf 'implements' some 'Bayesian Model'
'metahdep' SubClassOf 'is encoded in' some 'R language'
'metahdep' SubClassOf 'software'
'metahdep' SubClassOf 'R software'
'metahdep' SubClassOf 'BioConductor Software'
http://edamontology.org/data_2127
Genetic code identifier
'Genetic code identifier' SubClassOf 'is identifier of' some 'Genetic code'
http://www.ebi.ac.uk/efo/swo/SWO_0000625
minet
'minet' SubClassOf 'is encoded in' some 'R language'
'minet' SubClassOf 'software'
'minet' SubClassOf 'implements' some
('ARACNE algorithm' and 'CLR algorithm' and 'mrnet algorithm')
'minet' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'minet' SubClassOf 'has specified data input' some 'Gene expression data'
'minet' SubClassOf 'has specified data output' some
('Mutual information matrix (MIM)' and 'Graph plot')
'minet' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000622
miRNApath
'miRNApath' SubClassOf 'has specified data output' some
('Heatmap' and ('has format specification' only 'R data frame'))
'miRNApath' SubClassOf 'is published by' value 'Bioconductor'
'miRNApath' SubClassOf 'is executed in' some 'gene expression analysis'
'miRNApath' SubClassOf 'is encoded in' some 'R language'
'miRNApath' SubClassOf 'has specified data input' some 'Text data set'
'miRNApath' SubClassOf 'implements' some 'Hypergeometric enrichment'
'miRNApath' SubClassOf 'software'
'miRNApath' SubClassOf 'BioConductor Software'
'miRNApath' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000623
microRNA
'microRNA' SubClassOf 'is encoded in' some 'R language'
'microRNA' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'microRNA' SubClassOf 'is published by' value 'Bioconductor'
'microRNA' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'microRNA' SubClassOf 'software'
'microRNA' SubClassOf 'R software'
'microRNA' SubClassOf 'BioConductor Software'
http://edamontology.org/operation_3216
Scaffolding
'Scaffolding' SubClassOf 'has topic' some 'Nucleic acids'
http://www.ebi.ac.uk/efo/swo/SWO_0000632
nem
'nem' SubClassOf 'is executed in' some
('data normalization' and 'decision tree induction' and 'differential expression analysis')
'nem' SubClassOf 'software'
'nem' SubClassOf 'implements' some 'Nested Effects Models'
'nem' SubClassOf 'is encoded in' some 'R language'
'nem' SubClassOf 'has specified data input' some 'Gene expression dataset'
'nem' SubClassOf 'has specified data output' some 'Graph plot'
'nem' SubClassOf 'R software'
http://edamontology.org/operation_3215
Peak detection
'Peak detection' SubClassOf 'has input' some 'Mass spectrometry spectra'
http://www.ebi.ac.uk/efo/swo/SWO_0000630
multtest
'multtest' SubClassOf 'is executed in' some 'differential expression analysis'
'multtest' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'multtest' SubClassOf 'is published by' value 'Bioconductor'
'multtest' SubClassOf 'software'
'multtest' SubClassOf 'is encoded in' some 'R language'
'multtest' SubClassOf 'implements' some 'Multiple testing'
'multtest' SubClassOf 'has specified data input' some 'ALL/AML data set'
'multtest' SubClassOf 'BioConductor Software'
'multtest' SubClassOf 'R software'
http://edamontology.org/operation_3219
Read pre-processing
'Read pre-processing' SubClassOf 'Validation'
'Read pre-processing' SubClassOf 'Nucleic acid sequence analysis'
'Read pre-processing' SubClassOf 'Sequencing quality control'
http://edamontology.org/data_2135
Toggle
'Toggle' SubClassOf 'Obsolete concept (EDAM)'
'Toggle' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2136
Sequence width
'Sequence width' SubClassOf 'Obsolete concept (EDAM)'
'Sequence width' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3213
Genome indexing (suffix arrays)
'Genome indexing (suffix arrays)' SubClassOf 'Genome indexing'
'Genome indexing (suffix arrays)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2132
Mutation type
'Mutation type' SubClassOf 'Obsolete concept (EDAM)'
'Mutation type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3212
Genome indexing (Burrows-Wheeler)
'Genome indexing (Burrows-Wheeler)' SubClassOf 'Genome indexing'
'Genome indexing (Burrows-Wheeler)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3211
Genome indexing
'Genome indexing' SubClassOf 'has output' some 'Genome index'
http://edamontology.org/data_2134
Results sort order
'Results sort order' SubClassOf 'Obsolete concept (EDAM)'
'Results sort order' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2078
Sequence range format
'Sequence range format' SubClassOf 'is format of' some 'Sequence range'
http://edamontology.org/data_2130
Sequence profile type
'Sequence profile type' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profile type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2074
Dirichlet distribution format
'Dirichlet distribution format' SubClassOf 'is format of' some 'Dirichlet distribution'
http://edamontology.org/format_2076
RNA secondary structure format
'RNA secondary structure format' SubClassOf 'is format of' some 'RNA secondary structure'
http://edamontology.org/format_2075
HMM emission and transition counts format
'HMM emission and transition counts format' SubClassOf 'is format of' some 'Transition matrix'
'HMM emission and transition counts format' SubClassOf 'is format of' some 'Emission matrix'
http://www.ebi.ac.uk/efo/swo/SWO_0000639
oligoClasses
'oligoClasses' SubClassOf 'is encoded in' some 'R language'
'oligoClasses' SubClassOf 'software'
'oligoClasses' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000637
occugene
'occugene' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'occugene' SubClassOf 'implements' some 'Markov Chain Monte Carlo'
'occugene' SubClassOf 'software'
'occugene' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'occugene' SubClassOf 'is encoded in' some 'R language'
'occugene' SubClassOf 'is published by' value 'Bioconductor'
'occugene' SubClassOf 'BioConductor Software'
'occugene' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000638
oligo
'oligo' SubClassOf 'is encoded in' some 'R language'
'oligo' SubClassOf 'is published by' value 'Bioconductor'
'oligo' SubClassOf 'software'
'oligo' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'oligo' SubClassOf 'implements' some
('CRLMM algorithm' and 'SNPRMA algorithm')
'oligo' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'oligo' SubClassOf 'R software'
'oligo' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000635
nnNorm
'nnNorm' SubClassOf 'is published by' value 'Bioconductor'
'nnNorm' SubClassOf 'has specified data input' some 'Gene expression dataset'
'nnNorm' SubClassOf 'is executed in' some 'data normalization'
'nnNorm' SubClassOf 'implements' some 'Neural networks models'
'nnNorm' SubClassOf 'has specified data output' some
('Image' or 'Graph plot' or ('has format specification' only 'R data frame'))
'nnNorm' SubClassOf 'is encoded in' some 'R language'
'nnNorm' SubClassOf 'software'
'nnNorm' SubClassOf 'R software'
'nnNorm' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000636
nudge
'nudge' SubClassOf 'software'
'nudge' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'nudge' SubClassOf 'is encoded in' some 'R language'
'nudge' SubClassOf 'implements' some 'Expectation-Maximization(EM) algorithm'
'nudge' SubClassOf 'is published by' value 'Bioconductor'
'nudge' SubClassOf 'is executed in' some 'differential expression analysis'
'nudge' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'nudge' SubClassOf 'BioConductor Software'
'nudge' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000642
ontoTools
'ontoTools' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'ontoTools' SubClassOf 'is published by' value 'Bioconductor'
'ontoTools' SubClassOf 'software'
'ontoTools' SubClassOf 'has specified data output' some 'Graph plot'
'ontoTools' SubClassOf 'is encoded in' some 'R language'
'ontoTools' SubClassOf 'R software'
'ontoTools' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000641
oneChannelGUI
'oneChannelGUI' SubClassOf 'is encoded in' some 'R language'
'oneChannelGUI' SubClassOf 'has specified data input' some
('ILLUMINA data' or 'Gene expression dataset' or ('has format specification' only
('CEL binary format' or 'GEO Matrix Series format' or 'CEL ASCII format')))
'oneChannelGUI' SubClassOf 'software'
'oneChannelGUI' SubClassOf 'implements' some
(''FDR'' and 'Regression model' and 'RMA' and 'SAM')
'oneChannelGUI' SubClassOf 'is executed in' some
('data visualization' and 'background correction' and 'data normalization' and 'decision tree induction' and 'descriptive statistical calculation' and 'differential expression analysis')
'oneChannelGUI' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot' and ('has format specification' only 'pdf'))
'oneChannelGUI' SubClassOf 'is published by' value 'Bioconductor'
'oneChannelGUI' SubClassOf 'R software'
'oneChannelGUI' SubClassOf 'BioConductor Software'
http://edamontology.org/operation_3229
Exome analysis
'Exome analysis' SubClassOf 'Nucleic acid sequence analysis'
'Exome analysis' SubClassOf 'Sequence assembly'
http://edamontology.org/data_2146
Threshold
'Threshold' SubClassOf 'Obsolete concept (EDAM)'
'Threshold' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2147
Protein report (transcription factor)
'Protein report (transcription factor)' SubClassOf 'Obsolete concept (EDAM)'
'Protein report (transcription factor)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2072
Hidden Markov model format
'Hidden Markov model format' SubClassOf 'is format of' some 'Hidden Markov model'
http://edamontology.org/data_2149
Database category name
'Database category name' SubClassOf 'Obsolete concept (EDAM)'
'Database category name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2142
EMBOSS graph
'EMBOSS graph' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS graph' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2143
EMBOSS report
'EMBOSS report' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3223
Differential expression analysis
'Differential expression analysis' SubClassOf 'Gene expression profile comparison'
'Differential expression analysis' SubClassOf http://edamontology.org/operation_3742
'Differential expression analysis' SubClassOf 'Nucleic acid comparison'
http://edamontology.org/data_2145
Sequence offset
'Sequence offset' SubClassOf 'Obsolete concept (EDAM)'
'Sequence offset' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3221
Species frequency estimation
'Species frequency estimation' SubClassOf 'has topic' some 'Metagenomics'
http://edamontology.org/format_2067
Sequence distance matrix format
'Sequence distance matrix format' SubClassOf 'is format of' some 'Sequence distance matrix'
http://edamontology.org/format_2066
Database hits (sequence) format
'Database hits (sequence) format' SubClassOf 'is format of' some 'Sequence search results'
http://edamontology.org/format_2069
Sequence profile format
'Sequence profile format' SubClassOf 'is format of' some 'Sequence profile'
http://edamontology.org/data_2141
Window step size
'Window step size' SubClassOf 'Obsolete concept (EDAM)'
'Window step size' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2068
Sequence motif format
'Sequence motif format' SubClassOf 'is format of' some 'Sequence motif'
http://edamontology.org/format_2063
Protein report (enzyme) format
'Protein report (enzyme) format' SubClassOf 'Obsolete concept (EDAM)'
'Protein report (enzyme) format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2062
Protein report format
'Protein report format' SubClassOf 'is format of' some 'Protein report'
http://edamontology.org/format_2065
Protein structure report (quality evaluation) format
'Protein structure report (quality evaluation) format' SubClassOf 'is format of' some 'Protein structural quality report'
http://edamontology.org/format_2064
3D-1D scoring matrix format
'3D-1D scoring matrix format' SubClassOf 'is format of' some '3D-1D scoring matrix'
http://www.ebi.ac.uk/efo/swo/SWO_0000649
pathRender
'pathRender' SubClassOf 'is encoded in' some 'R language'
'pathRender' SubClassOf 'is executed in' some
('data visualization' and 'differential expression analysis')
'pathRender' SubClassOf 'software'
'pathRender' SubClassOf 'has specified data input' some 'Gene expression dataset'
'pathRender' SubClassOf 'has specified data output' some 'Graph plot'
'pathRender' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000646
panp
'panp' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' only
('CEL binary format' or 'CEL ASCII format')))
'panp' SubClassOf 'is published by' value 'Bioconductor'
'panp' SubClassOf 'has specified data output' some
('CSV data set' and 'Graph plot')
'panp' SubClassOf 'implements' some 'Presence-Absence calls with Negative Probesets (PANP)'
'panp' SubClassOf 'is encoded in' some 'R language'
'panp' SubClassOf 'software'
'panp' SubClassOf 'is executed in' some
('gene expression analysis' and 'descriptive statistical calculation')
'panp' SubClassOf 'BioConductor Software'
'panp' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000647
parody
'parody' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'parody' SubClassOf 'is published by' value 'Bioconductor'
'parody' SubClassOf 'is encoded in' some 'R language'
'parody' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'parody' SubClassOf 'software'
'parody' SubClassOf 'R software'
'parody' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000645
pamr
'pamr' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'pamr' SubClassOf 'implements' some ''ANOVA''
'pamr' SubClassOf 'is published by' value 'Bioconductor'
'pamr' SubClassOf 'has specified data input' some 'Text data set'
'pamr' SubClassOf 'software'
'pamr' SubClassOf 'is encoded in' some 'R language'
'pamr' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'pamr' SubClassOf 'R software'
'pamr' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000653
pdInfoBuilder
'pdInfoBuilder' SubClassOf 'is published by' value 'Bioconductor'
'pdInfoBuilder' SubClassOf 'software'
'pdInfoBuilder' SubClassOf 'has specified data input' some
('Text data set' and 'CSV data set' and ('has format specification' only
('CDF binary format' or 'CDF ASCII format')))
'pdInfoBuilder' SubClassOf 'is encoded in' some 'R language'
'pdInfoBuilder' SubClassOf 'has specified data output' some 'Text data set'
'pdInfoBuilder' SubClassOf 'is executed in' some 'data annotation'
'pdInfoBuilder' SubClassOf 'BioConductor Software'
'pdInfoBuilder' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000654
pdmclass
'pdmclass' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'pdmclass' SubClassOf 'implements' some 'Regression model'
'pdmclass' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'pdmclass' SubClassOf 'software'
'pdmclass' SubClassOf 'is encoded in' some 'R language'
'pdmclass' SubClassOf 'has specified data input' some 'Gene expression dataset'
'pdmclass' SubClassOf 'is published by' value 'Bioconductor'
'pdmclass' SubClassOf 'R software'
'pdmclass' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000651
pcot2
'pcot2' SubClassOf 'has specified data input' some 'ALL/AML data set'
'pcot2' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'JPEG'))
'pcot2' SubClassOf 'is encoded in' some 'R language'
'pcot2' SubClassOf 'software'
'pcot2' SubClassOf 'is published by' value 'Bioconductor'
'pcot2' SubClassOf 'implements' some ''FDR''
'pcot2' SubClassOf 'R software'
'pcot2' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000650
pcaMethods
'pcaMethods' SubClassOf 'has specified data output' some 'Graph plot'
'pcaMethods' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'pcaMethods' SubClassOf 'is published by' value 'Bioconductor'
'pcaMethods' SubClassOf 'software'
'pcaMethods' SubClassOf 'is executed in' some
('data visualization' and 'cross validation')
'pcaMethods' SubClassOf 'implements' some
('Bayesian Model' and 'Expectation-Maximization(EM) algorithm' and 'Nonlinear Estimation by Iterative Partial Least Squares' and 'SVDimpute algorithm')
'pcaMethods' SubClassOf 'is encoded in' some 'R language'
'pcaMethods' SubClassOf 'R software'
'pcaMethods' SubClassOf 'BioConductor Software'
http://www.w3.org/2002/07/owl#DeprecatedClass
'information processing' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
'Topic' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
'data' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
'data format specification' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2157
Word composition
'Word composition' SubClassOf 'Obsolete concept (EDAM)'
'Word composition' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3488
NMR spectrum
'NMR spectrum' SubClassOf 'has topic' some 'Structural biology'
http://edamontology.org/data_2156
Date
'Date' SubClassOf 'Obsolete concept (EDAM)'
'Date' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2150
Sequence profile name
'Sequence profile name' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profile name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2151
Color
'Color' SubClassOf 'Obsolete concept (EDAM)'
'Color' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/Class_6
matlab software
'matlab software' EquivalentTo 'is encoded in' some 'MATLAB language'
http://edamontology.org/data_2152
Rendering parameter
'Rendering parameter' SubClassOf 'Obsolete concept (EDAM)'
'Rendering parameter' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3483
Spectrum
'Spectrum' SubClassOf 'data'
'Spectrum' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/efo/swo/SWO_0000659
plgem
'plgem' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'plgem' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'plgem' SubClassOf 'is encoded in' some 'R language'
'plgem' SubClassOf 'software'
'plgem' SubClassOf 'implements' some 'Power Law Global Error Model (PLGEM) analysis method'
'plgem' SubClassOf 'is published by' value 'Bioconductor'
'plgem' SubClassOf 'has specified data input' some 'Gene expression dataset'
'plgem' SubClassOf 'BioConductor Software'
'plgem' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000657
pickgene
'pickgene' SubClassOf 'software'
'pickgene' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'pickgene' SubClassOf 'is published by' value 'Bioconductor'
'pickgene' SubClassOf 'implements' some
('Median Average Difference Algorithm' and 'Gene array analysis algorithm')
'pickgene' SubClassOf 'is executed in' some
('background correction' and 'descriptive statistical calculation' and 'differential expression analysis')
'pickgene' SubClassOf 'is encoded in' some 'R language'
'pickgene' SubClassOf 'has specified data input' some 'Gene expression data'
'pickgene' SubClassOf 'BioConductor Software'
'pickgene' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000658
pkgDepTools
'pkgDepTools' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'pkgDepTools' SubClassOf 'is encoded in' some 'R language'
'pkgDepTools' SubClassOf 'software'
'pkgDepTools' SubClassOf 'has specified data output' some 'Graph plot'
'pkgDepTools' SubClassOf 'is published by' value 'Bioconductor'
'pkgDepTools' SubClassOf 'BioConductor Software'
'pkgDepTools' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000656
pgUtils
'pgUtils' SubClassOf 'has specified data output' some ('has format specification' only 'log file')
'pgUtils' SubClassOf 'is published by' value 'Bioconductor'
'pgUtils' SubClassOf 'has specified data input' some 'Text data set'
'pgUtils' SubClassOf 'is executed in' some 'database creation'
'pgUtils' SubClassOf 'software'
'pgUtils' SubClassOf 'is encoded in' some 'R language'
'pgUtils' SubClassOf 'BioConductor Software'
'pgUtils' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000665
ppiStats
'ppiStats' SubClassOf 'has specified data input' some 'AP-MS data'
'ppiStats' SubClassOf 'is published by' value 'Bioconductor'
'ppiStats' SubClassOf 'software'
'ppiStats' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'ppiStats' SubClassOf 'is encoded in' some 'R language'
'ppiStats' SubClassOf 'R software'
'ppiStats' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000662
plw
'plw' SubClassOf 'software'
'plw' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'plw' SubClassOf 'implements' some
('Locally Moderated Weighted-t (LMW) method' and 'Probe level Locally moderated Weighted median-t (PLW) method')
'plw' SubClassOf 'is published by' value 'Bioconductor'
'plw' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'plw' SubClassOf 'is executed in' some
('background correction' and 'data normalization' and 'differential expression analysis')
'plw' SubClassOf 'is encoded in' some 'R language'
'plw' SubClassOf 'BioConductor Software'
'plw' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000660
plier
'plier' SubClassOf 'is encoded in' some 'R language'
'plier' SubClassOf 'has specified data input' some 'Gene expression dataset'
'plier' SubClassOf 'software'
'plier' SubClassOf 'implements' some 'PLIER (Probe Logarithmic Error Intensity Estimate) method'
'plier' SubClassOf 'has specified data output' some 'Gene expression dataset'
'plier' SubClassOf 'R software'
http://edamontology.org/data_2169
Nucleic acid features (siRNA)
'Nucleic acid features (siRNA)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (siRNA)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2164
Protein sequence properties plot
'Protein sequence properties plot' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence properties plot' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3498
Sequence variations
'Sequence variations' SubClassOf 'data'
'Sequence variations' SubClassOf 'has topic' some 'Genetic variation'
'Sequence variations' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/topic_2754
Introns
'Introns' SubClassOf 'Gene transcript features'
'Introns' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000669
puma
'puma' SubClassOf 'is published by' value 'Bioconductor'
'puma' SubClassOf 'implements' some
('Propagation of uncertainty in microarray analysis' and 'RMA')
'puma' SubClassOf 'is encoded in' some 'R language'
'puma' SubClassOf 'is executed in' some
('data normalization' and 'differential expression analysis')
'puma' SubClassOf 'has specified data output' some
('CSV data set' and 'Graph plot')
'puma' SubClassOf 'software'
'puma' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'puma' SubClassOf 'BioConductor Software'
'puma' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000666
prada
'prada' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'prada' SubClassOf 'is published by' value 'Bioconductor'
'prada' SubClassOf 'software'
'prada' SubClassOf 'is encoded in' some 'R language'
'prada' SubClassOf 'has specified data input' some
('FACS data' and ('has format specification' some 'FCS3.0') and ('has format specification' only 'FCS3.0'))
'prada' SubClassOf 'BioConductor Software'
'prada' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000667
preprocessCore
'preprocessCore' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'preprocessCore' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'preprocessCore' SubClassOf 'is encoded in' some 'R language'
'preprocessCore' SubClassOf 'implements' some ''PLM''
'preprocessCore' SubClassOf 'is published by' value 'Bioconductor'
'preprocessCore' SubClassOf 'software'
'preprocessCore' SubClassOf 'R software'
'preprocessCore' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000675
quantsmooth
'quantsmooth' SubClassOf 'has specified data input' some
('ILLUMINA data' or 'Gene expression dataset')
'quantsmooth' SubClassOf 'is executed in' some 'data visualization'
'quantsmooth' SubClassOf 'software'
'quantsmooth' SubClassOf 'has specified data output' some 'Graph plot'
'quantsmooth' SubClassOf 'is encoded in' some 'R language'
'quantsmooth' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000676
qvalue
'qvalue' SubClassOf 'has specified data input' some 'Gene expression dataset'
'qvalue' SubClassOf 'implements' some ''FDR''
'qvalue' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'qvalue' SubClassOf 'is encoded in' some 'R language'
'qvalue' SubClassOf 'software'
'qvalue' SubClassOf 'R software'
http://edamontology.org/operation_3259
Transcriptome assembly (de novo)
'Transcriptome assembly (de novo)' SubClassOf 'Obsolete concept (EDAM)'
'Transcriptome assembly (de novo)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3258
Transcriptome assembly
'Transcriptome assembly' SubClassOf 'has topic' some 'Sequence assembly'
'Transcriptome assembly' SubClassOf 'has output' some 'Sequence assembly'
http://www.ebi.ac.uk/efo/swo/SWO_0000671
qpcrNorm
'qpcrNorm' SubClassOf 'implements' some
('Quantile normalization' and 'Rank-invariant set normalization')
'qpcrNorm' SubClassOf 'is executed in' some 'data normalization'
'qpcrNorm' SubClassOf 'is encoded in' some 'R language'
'qpcrNorm' SubClassOf 'has specified data input' some 'qPCR data'
'qpcrNorm' SubClassOf 'has specified data output' some 'Graph plot'
'qpcrNorm' SubClassOf 'software'
'qpcrNorm' SubClassOf 'R software'
http://edamontology.org/topic_0100
Nucleic acid restriction
'Nucleic acid restriction' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid restriction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000672
qpgraph
'qpgraph' SubClassOf 'is encoded in' some 'R language'
'qpgraph' SubClassOf 'has specified data input' some 'Gene expression data'
'qpgraph' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'qpgraph' SubClassOf 'is published by' value 'Bioconductor'
'qpgraph' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'qpgraph' SubClassOf 'software'
'qpgraph' SubClassOf 'implements' some
('Pearson correlation estimator' and 'AvgNRRs')
'qpgraph' SubClassOf 'BioConductor Software'
'qpgraph' SubClassOf 'R software'
http://edamontology.org/data_2179
Exactly 2
'Exactly 2' SubClassOf 'Obsolete concept (EDAM)'
'Exactly 2' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2176
Cardinality
'Cardinality' SubClassOf 'Obsolete concept (EDAM)'
'Cardinality' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2177
Exactly 1
'Exactly 1' SubClassOf 'Obsolete concept (EDAM)'
'Exactly 1' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2178
1 or more
'1 or more' SubClassOf 'Obsolete concept (EDAM)'
'1 or more' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2034
Biological model format
'Biological model format' SubClassOf 'Obsolete concept (EDAM)'
'Biological model format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2173
Sequence set (stream)
'Sequence set (stream)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence set (stream)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2036
Phylogenetic character data format
'Phylogenetic character data format' SubClassOf 'is format of' some 'Phylogenetic character data'
http://edamontology.org/topic_0109
Gene finding
'Gene finding' SubClassOf 'Obsolete concept (EDAM)'
'Gene finding' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2035
Chemical formula format
'Chemical formula format' SubClassOf 'is format of' some 'Chemical formula'
http://edamontology.org/format_2030
Small molecule report format
'Small molecule report format' SubClassOf 'is format of' some 'Small molecule report'
http://edamontology.org/format_2031
Gene annotation format
'Gene annotation format' SubClassOf 'is format of' some 'Gene report'
http://edamontology.org/format_2038
Phylogenetic discrete states format
'Phylogenetic discrete states format' SubClassOf 'is format of' some 'Phylogenetic discrete data'
http://edamontology.org/topic_0107
Genetic codes and codon usage
'Genetic codes and codon usage' SubClassOf 'Obsolete concept (EDAM)'
'Genetic codes and codon usage' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000679
rama
'rama' SubClassOf 'software'
'rama' SubClassOf 'has specified data input' some 'Gene expression dataset'
'rama' SubClassOf 'is encoded in' some 'R language'
'rama' SubClassOf 'is published by' value 'Bioconductor'
'rama' SubClassOf 'is specified data input of' exactly 2 'Gene expression dataset'
'rama' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'rama' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'rama' SubClassOf 'implements' some
('Bayesian Model' and 'Markov Chain Monte Carlo')
'rama' SubClassOf 'data'
'rama' SubClassOf 'BioConductor Software'
'rama' SubClassOf 'R software'
http://edamontology.org/format_2037
Phylogenetic continuous quantitative character format
'Phylogenetic continuous quantitative character format' SubClassOf 'is format of' some 'Phylogenetic continuous quantitative data'
http://www.ebi.ac.uk/efo/swo/SWO_0000677
rHVDM
'rHVDM' SubClassOf 'software'
'rHVDM' SubClassOf 'is encoded in' some 'R language'
'rHVDM' SubClassOf 'implements' some 'Hidden Variable Dynamic Modelling HVDM)'
'rHVDM' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'rHVDM' SubClassOf 'has specified data input' some 'Gene expression dataset'
'rHVDM' SubClassOf 'has specified data output' some 'HTML report'
'rHVDM' SubClassOf 'R software'
http://edamontology.org/format_2039
Phylogenetic tree report (cliques) format
'Phylogenetic tree report (cliques) format' SubClassOf 'is format of' some 'Phylogenetic character cliques'
http://www.ebi.ac.uk/efo/swo/SWO_0000678
rMAT
'rMAT' SubClassOf 'is executed in' some
('gene expression analysis' and 'parse' and 'data normalization')
'rMAT' SubClassOf 'is encoded in' some 'R language'
'rMAT' SubClassOf 'has specified data input' some ('has format specification' only
('BPMAP' or 'CEL binary format'))
'rMAT' SubClassOf 'software'
'rMAT' SubClassOf 'has specified data output' some ('has format specification' only
('BPMAP' or 'CEL binary format'))
'rMAT' SubClassOf 'is published by' value 'Bioconductor'
'rMAT' SubClassOf 'R software'
'rMAT' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000686
rflowcyt
'rflowcyt' SubClassOf 'software'
'rflowcyt' SubClassOf 'is published by' value 'Bioconductor'
'rflowcyt' SubClassOf 'has specified data input' some ('has format specification' only 'Data File Standard for Flow Cytometry')
'rflowcyt' SubClassOf 'is encoded in' some 'R language'
'rflowcyt' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'rflowcyt' SubClassOf 'R software'
'rflowcyt' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000687
.rma format
'.rma format' SubClassOf 'data format specification'
'.rma format' SubClassOf http://www.ebi.ac.uk/swo/data/SWO_3000079
http://www.ebi.ac.uk/efo/swo/SWO_0000685
reb
'reb' SubClassOf 'software'
'reb' SubClassOf 'has specified data output' some
('Heatmap' and 'Image')
'reb' SubClassOf 'is encoded in' some 'R language'
'reb' SubClassOf 'has specified data input' some 'Gene expression dataset'
'reb' SubClassOf 'R software'
http://edamontology.org/topic_0110
Transcription
'Transcription' SubClassOf 'Obsolete concept (EDAM)'
'Transcription' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0111
Promoters
'Promoters' SubClassOf 'Obsolete concept (EDAM)'
'Promoters' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000683
rbsurv
'rbsurv' SubClassOf 'has specified data input' some 'Gene expression data'
'rbsurv' SubClassOf 'is published by' value 'Bioconductor'
'rbsurv' SubClassOf 'software'
'rbsurv' SubClassOf 'is encoded in' some 'R language'
'rbsurv' SubClassOf 'implements' some 'Robust likelihood-based survival modeling'
'rbsurv' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'rbsurv' SubClassOf 'R software'
'rbsurv' SubClassOf 'BioConductor Software'
http://edamontology.org/operation_3267
Sequence coordinate conversion
'Sequence coordinate conversion' SubClassOf 'has output' some 'Sequence coordinates'
'Sequence coordinate conversion' SubClassOf 'has input' some 'Sequence coordinates'
http://edamontology.org/operation_3260
Transcriptome assembly (mapping)
'Transcriptome assembly (mapping)' SubClassOf 'Obsolete concept (EDAM)'
'Transcriptome assembly (mapping)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2180
2 or more
'2 or more' SubClassOf 'Obsolete concept (EDAM)'
'2 or more' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2021
Text mining report format
'Text mining report format' SubClassOf 'is format of' some 'Text mining report'
http://edamontology.org/format_2020
Article format
'Article format' SubClassOf 'is format of' some 'Article'
http://edamontology.org/topic_0114
Gene structure
'Gene structure' SubClassOf 'Nucleic acid sites, features and motifs'
http://edamontology.org/topic_0112
Nucleic acid folding
'Nucleic acid folding' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid folding' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2027
Enzyme kinetics report format
'Enzyme kinetics report format' SubClassOf 'is format of' some 'Enzyme kinetics data'
http://www.ebi.ac.uk/efo/swo/SWO_0000688
rsbml
'rsbml' SubClassOf 'is published by' value 'Bioconductor'
'rsbml' SubClassOf 'software'
'rsbml' SubClassOf 'has specified data input' some ('has format specification' only 'SBML')
'rsbml' SubClassOf 'is executed in' some
('parse' and 'cross validation')
'rsbml' SubClassOf 'is encoded in' some 'R language'
'rsbml' SubClassOf 'has specified data output' some ('has format specification' only 'XML')
'rsbml' SubClassOf 'R software'
'rsbml' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000689
rtracklayer
'rtracklayer' SubClassOf 'is encoded in' some 'R language'
'rtracklayer' SubClassOf 'is published by' value 'Bioconductor'
'rtracklayer' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'rtracklayer' SubClassOf 'software'
'rtracklayer' SubClassOf 'is executed in' some 'data visualization'
'rtracklayer' SubClassOf 'has specified data input' some ('has format specification' only
('GFF' or 'BED format'))
'rtracklayer' SubClassOf 'R software'
'rtracklayer' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000697
simulatorAPMS
'simulatorAPMS' SubClassOf 'software'
'simulatorAPMS' SubClassOf 'has specified data input' some 'AP-MS data'
'simulatorAPMS' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'simulatorAPMS' SubClassOf 'implements' some 'Complex Estimation Algorithm'
'simulatorAPMS' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'simulatorAPMS' SubClassOf 'is encoded in' some 'R language'
'simulatorAPMS' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000698
sizepower
'sizepower' SubClassOf 'software'
'sizepower' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'sizepower' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'sizepower' SubClassOf 'is published by' value 'Bioconductor'
'sizepower' SubClassOf 'is executed in' some
('background correction' and 'data normalization' and 'differential expression analysis')
'sizepower' SubClassOf 'is encoded in' some 'R language'
'sizepower' SubClassOf 'BioConductor Software'
'sizepower' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000696
simpleaffy
'simpleaffy' SubClassOf 'is encoded in' some 'R language'
'simpleaffy' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' and 'covdesc file'))
'simpleaffy' SubClassOf 'has specified data output' some
('Heatmap' and 'Text data set' and 'Graph plot')
'simpleaffy' SubClassOf 'implements' some
('RMA' and ''MAS5'')
'simpleaffy' SubClassOf 'software'
'simpleaffy' SubClassOf 'is published by' value 'Bioconductor'
'simpleaffy' SubClassOf 'is executed in' some
('background correction' and 'data normalization' and 'descriptive statistical calculation')
'simpleaffy' SubClassOf 'BioConductor Software'
'simpleaffy' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000693
sigPathway
'sigPathway' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'sigPathway' SubClassOf 'software'
'sigPathway' SubClassOf 'has specified data input' some 'Gene expression data'
'sigPathway' SubClassOf 'is encoded in' some 'R language'
'sigPathway' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000694
siggenes
'siggenes' SubClassOf 'has specified data input' some 'Text data set'
'siggenes' SubClassOf 'software'
'siggenes' SubClassOf 'is encoded in' some 'R language'
'siggenes' SubClassOf 'is executed in' some 'differential expression analysis'
'siggenes' SubClassOf 'implements' some
('Empirical Bayes rule' and ''FDR'' and 'SAM')
'siggenes' SubClassOf 'has specified data output' some 'HTML report'
'siggenes' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000691
sagenhaft
'sagenhaft' SubClassOf 'is published by' value 'Bioconductor'
'sagenhaft' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'sagenhaft' SubClassOf 'implements' some 'Serial Analysis of Gene Expression (SAGE)'
'sagenhaft' SubClassOf 'software'
'sagenhaft' SubClassOf 'has specified data output' some 'Text data set'
'sagenhaft' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'sagenhaft' SubClassOf 'is encoded in' some 'R language'
'sagenhaft' SubClassOf 'BioConductor Software'
'sagenhaft' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000692
seqLogo
'seqLogo' SubClassOf 'software'
'seqLogo' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'seqLogo' SubClassOf 'is published by' value 'Bioconductor'
'seqLogo' SubClassOf 'implements' some 'Position weight matrix (PWM )'
'seqLogo' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'seqLogo' SubClassOf 'is encoded in' some 'R language'
'seqLogo' SubClassOf 'R software'
'seqLogo' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000690
safe
'safe' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'safe' SubClassOf 'has specified data input' some 'ALL/AML data set'
'safe' SubClassOf 'is specified data input of' exactly 3 'Text data set'
'safe' SubClassOf 'is published by' value 'Bioconductor'
'safe' SubClassOf 'implements' some
(''ANOVA'' and 'Bootstrap' and 'Global test' and ''t-test'')
'safe' SubClassOf 'is encoded in' some 'R language'
'safe' SubClassOf 'software'
'safe' SubClassOf 'BioConductor Software'
'safe' SubClassOf 'data'
'safe' SubClassOf 'R software'
http://edamontology.org/format_2060
Map format
'Map format' SubClassOf 'is format of' some 'Map'
http://edamontology.org/data_2198
Gene cluster
'Gene cluster' SubClassOf 'Obsolete concept (EDAM)'
'Gene cluster' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3232
Gene expression QTL analysis
'Gene expression QTL analysis' SubClassOf 'has output' some 'Pathway or network report'
http://edamontology.org/format_2056
Microarray experiment data format
'Microarray experiment data format' SubClassOf 'Format (typed)'
'Microarray experiment data format' SubClassOf 'Experiment annotation format'
http://edamontology.org/format_2055
Sequence assembly format
'Sequence assembly format' SubClassOf 'is format of' some 'Sequence assembly'
http://edamontology.org/format_2058
Gene expression report format
'Gene expression report format' SubClassOf 'Gene annotation format'
'Gene expression report format' SubClassOf 'is format of' some 'Processed microarray data'
'Gene expression report format' SubClassOf 'Format (typed)'
http://edamontology.org/format_2057
Sequence trace format
'Sequence trace format' SubClassOf 'is format of' some 'Sequence trace'
http://edamontology.org/format_2052
Protein family report format
'Protein family report format' SubClassOf 'is format of' some 'Protein family report'
http://edamontology.org/format_2051
Polymorphism report format
'Polymorphism report format' SubClassOf 'Obsolete concept (EDAM)'
'Polymorphism report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2191
Protein features report (chemical modifications)
'Protein features report (chemical modifications)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (chemical modifications)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2054
Protein interaction format
'Protein interaction format' SubClassOf 'is format of' some 'Protein interaction report'
http://edamontology.org/data_2192
Error
'Error' SubClassOf 'Obsolete concept (EDAM)'
'Error' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_1456
Protein membrane regions
'Protein membrane regions' SubClassOf 'Protein domains and folds'
'Protein membrane regions' SubClassOf 'Protein domains'
'Protein membrane regions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2059
Genotype and phenotype annotation format
'Genotype and phenotype annotation format' SubClassOf 'Obsolete concept (EDAM)'
'Genotype and phenotype annotation format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000699
xmapbridge
'xmapbridge' SubClassOf 'software'
'xmapbridge' SubClassOf 'is published by' value 'Bioconductor'
'xmapbridge' SubClassOf 'is encoded in' some 'R language'
'xmapbridge' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'xmapbridge' SubClassOf 'has specified data output' some 'Graph plot'
'xmapbridge' SubClassOf 'BioConductor Software'
'xmapbridge' SubClassOf 'R software'
http://edamontology.org/topic_0133
Two-dimensional gel electrophoresis
'Two-dimensional gel electrophoresis' SubClassOf 'Obsolete concept (EDAM)'
'Two-dimensional gel electrophoresis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2045
Electron microscopy model format
'Electron microscopy model format' SubClassOf 'Obsolete concept (EDAM)'
'Electron microscopy model format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2040
Phylogenetic tree report (invariants) format
'Phylogenetic tree report (invariants) format' SubClassOf 'is format of' some 'Phylogenetic invariants'
http://edamontology.org/topic_0137
Protein hydropathy
'Protein hydropathy' SubClassOf 'Obsolete concept (EDAM)'
'Protein hydropathy' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0134
Mass spectrometry
'Mass spectrometry' SubClassOf 'Proteomics experiment'
'Mass spectrometry' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0135
Protein microarrays
'Protein microarrays' SubClassOf 'Obsolete concept (EDAM)'
'Protein microarrays' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2049
Phylogenetic tree report (tree distances) format
'Phylogenetic tree report (tree distances) format' SubClassOf 'is format of' some 'Phylogenetic tree distances'
http://www.ebi.ac.uk/efo/swo/SWO_0000599
logicFS
'logicFS' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'logicFS' SubClassOf 'is encoded in' some 'R language'
'logicFS' SubClassOf 'implements' some 'Logic regression'
'logicFS' SubClassOf 'has specified data input' some ('has format specification' only 'logicFS dataset')
'logicFS' SubClassOf 'is published by' value 'Bioconductor'
'logicFS' SubClassOf 'software'
'logicFS' SubClassOf 'BioConductor Software'
'logicFS' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000594
limmaGUI
'limmaGUI' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' only 'TIFF'))
'limmaGUI' SubClassOf 'software'
'limmaGUI' SubClassOf 'is published by' value 'Bioconductor'
'limmaGUI' SubClassOf 'is encoded in' some 'R language'
'limmaGUI' SubClassOf 'has specified data input' some 'Text data set'
'limmaGUI' SubClassOf 'implements' some 'Linear modelling'
'limmaGUI' SubClassOf 'BioConductor Software'
'limmaGUI' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000593
limma
'limma' SubClassOf 'is published by' value 'Bioconductor'
'limma' SubClassOf 'is encoded in' some 'R language'
'limma' SubClassOf 'software'
'limma' SubClassOf 'has specified data input' some 'Text data set'
'limma' SubClassOf 'implements' some 'Linear modelling'
'limma' SubClassOf 'is developed by' value 'Walter and Eliza Hall Institute'
'limma' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' only 'TIFF'))
'limma' SubClassOf 'BioConductor Software'
'limma' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000590
keggorth
'keggorth' SubClassOf 'software'
'keggorth' SubClassOf 'has specified data input' some 'Gene expression dataset'
'keggorth' SubClassOf 'is encoded in' some 'R language'
'keggorth' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'keggorth' SubClassOf 'is published by' value 'Bioconductor'
'keggorth' SubClassOf 'BioConductor Software'
'keggorth' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000591
lapmix
'lapmix' SubClassOf 'has specified data input' some 'Gene expression dataset'
'lapmix' SubClassOf 'is encoded in' some 'R language'
'lapmix' SubClassOf 'is published by' value 'Bioconductor'
'lapmix' SubClassOf 'software'
'lapmix' SubClassOf 'implements' some 'Laplace mixture model'
'lapmix' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'lapmix' SubClassOf 'is executed in' some 'differential expression analysis'
'lapmix' SubClassOf 'BioConductor Software'
'lapmix' SubClassOf 'R software'
http://kt.ijs.si/panovp/OntoDM#OntoDM_000235
predictive modeling task
DisjointClasses: 'probability distribution estimation task', 'pattern discovery task', 'predictive modeling task', 'clustering task'
http://edamontology.org/data_2090
Database entry version information
'Database entry version information' SubClassOf 'Obsolete concept (EDAM)'
'Database entry version information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2092
SNP
'SNP' SubClassOf 'Obsolete concept (EDAM)'
'SNP' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2093
Data reference
'Data reference' SubClassOf 'data'
'Data reference' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/operation_3187
Sequence contamination filtering
'Sequence contamination filtering' SubClassOf 'has topic' some 'Nucleic acids'
http://edamontology.org/operation_3185
Base-calling
'Base-calling' SubClassOf 'has topic' some 'Sequencing'
http://edamontology.org/operation_3189
Trim ends
'Trim ends' SubClassOf 'Sequence trimming'
'Trim ends' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3180
Sequence assembly validation
'Sequence assembly validation' SubClassOf 'has output' some 'Sequence assembly report'
'Sequence assembly validation' SubClassOf 'has input' some 'Sequence assembly'
'Sequence assembly validation' SubClassOf 'has topic' some 'Sequence assembly'
http://kt.ijs.si/panovp/OntoDM#OntoDM_000264
clustering task
DisjointClasses: 'probability distribution estimation task', 'pattern discovery task', 'predictive modeling task', 'clustering task'
http://edamontology.org/topic_0077
Nucleic acids
'Nucleic acids' SubClassOf 'Biochemistry'
'Nucleic acids' SubClassOf 'Computational biology'
http://edamontology.org/topic_0078
Proteins
'Proteins' SubClassOf 'Biochemistry'
'Proteins' SubClassOf 'Computational biology'
http://www.ebi.ac.uk/swo/SWO_9000090
Dropbox
'Dropbox' SubClassOf 'has license' some 'Proprietary commercial software license'
'Dropbox' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Dropbox'))
'Dropbox' SubClassOf 'has interface' some 'application programming interface'
'Dropbox' SubClassOf 'has interface' some 'command-line interface'
'Dropbox' SubClassOf 'software'
'Dropbox' SubClassOf 'has website homepage' value "www.dropbox.com"^^http://www.w3.org/2001/XMLSchema#string
'Dropbox' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Dropbox'))
'Dropbox' SubClassOf 'software with command line interface'
http://www.ebi.ac.uk/swo/SWO_9000092
EMBOSS package
'EMBOSS package' SubClassOf 'has version' value '6.3.0'
'EMBOSS package' SubClassOf 'is executed in' some 'biological data processing'
'EMBOSS package' SubClassOf 'is executed in' some 'molecular sequence analysis'
'EMBOSS package' SubClassOf 'has license' some 'lGPL'
'EMBOSS package' SubClassOf 'software'
'EMBOSS package' SubClassOf 'has interface' some 'command-line interface'
'EMBOSS package' SubClassOf 'has license' some 'GNU GPL'
'EMBOSS package' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'EMBL'))
'EMBOSS package' SubClassOf 'software with command line interface'
http://www.ebi.ac.uk/swo/SWO_9000091
Eclipse
'Eclipse' SubClassOf 'has interface' some 'graphical user interface'
'Eclipse' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'Textual format'))
'Eclipse' SubClassOf 'has website homepage' value "http://www.eclipse.org"
'Eclipse' SubClassOf 'has license' some 'EPL v1'
'Eclipse' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Eclipse Foundation'))
'Eclipse' SubClassOf 'has version' value 'Helios Service Release 2'
'Eclipse' SubClassOf 'is executed in' some 'software development'
http://www.ebi.ac.uk/swo/SWO_9000094
Grimoires
'Grimoires' SubClassOf 'has interface' some 'web service'
'Grimoires' SubClassOf 'has interface' some 'application programming interface'
'Grimoires' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'OMII-UK'))
'Grimoires' SubClassOf 'has license' some 'Modified BSD'
'Grimoires' SubClassOf 'has interface' some 'command-line interface'
'Grimoires' SubClassOf 'has website homepage' value "http://sf.net/projects/grimoires"
'Grimoires' SubClassOf 'has version' value '2.0.0'
'Grimoires' SubClassOf 'has declared status' some 'Latest release'
'Grimoires' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'XML'))
'Grimoires' SubClassOf 'software'
'Grimoires' SubClassOf 'software with command line interface'
http://www.ebi.ac.uk/swo/SWO_9000093
Endnote
'Endnote' SubClassOf 'is executed in' some 'citation management'
'Endnote' SubClassOf 'has interface' some 'graphical user interface'
'Endnote' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Thompson Reuters'))
'Endnote' SubClassOf 'has declared status' some 'Live'
'Endnote' SubClassOf 'has website homepage' value "http://www.endnote.com/"
'Endnote' SubClassOf 'has license' some 'Proprietary commercial software license'
http://edamontology.org/topic_0079
Metabolites
'Metabolites' SubClassOf 'Small molecules'
'Metabolites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0084
Phylogeny
'Phylogeny' SubClassOf 'Computational biology'
http://edamontology.org/data_2914
Sequence features metadata
'Sequence features metadata' SubClassOf 'Parameter'
'Sequence features metadata' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/topic_0083
Alignment
'Alignment' SubClassOf 'Obsolete concept (EDAM)'
'Alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0089
Ontology and terminology
'Ontology and terminology' SubClassOf 'Data management'
'Ontology and terminology' SubClassOf 'Informatics'
http://edamontology.org/data_2911
Transcription factor accession
'Transcription factor accession' SubClassOf 'Accession'
http://edamontology.org/data_2912
Strain accession
'Strain accession' SubClassOf 'is identifier of' some 'Cell line report'
http://edamontology.org/operation_3195
Sequencing error detection
'Sequencing error detection' SubClassOf 'has topic' some 'Sequencing'
http://edamontology.org/operation_3190
Trim vector
'Trim vector' SubClassOf 'Sequence trimming'
'Trim vector' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3191
Trim to reference
'Trim to reference' SubClassOf 'Sequence trimming'
'Trim to reference' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3118
Protein topological domains
'Protein topological domains' SubClassOf 'Protein domains'
'Protein topological domains' SubClassOf 'Protein domains and folds'
'Protein topological domains' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2925
Sequence data
'Sequence data' SubClassOf 'Obsolete concept (EDAM)'
'Sequence data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3120
Protein variants
'Protein variants' SubClassOf 'Protein structure analysis'
'Protein variants' SubClassOf 'Protein expression'
http://edamontology.org/data_2927
Codon usage
'Codon usage' SubClassOf 'Obsolete concept (EDAM)'
'Codon usage' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0094
Nucleic acid thermodynamics
'Nucleic acid thermodynamics' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid thermodynamics' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0097
Nucleic acid structure analysis
'Nucleic acid structure analysis' SubClassOf 'Nucleic acids'
http://edamontology.org/topic_3123
Expression signals
'Expression signals' SubClassOf 'Gene structure'
'Expression signals' SubClassOf 'Gene expression'
'Expression signals' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.geneontology.org/formats/oboInOwl#ObsoleteClass
obsolete SWO class
Obsolete concept (EDAM)
'Obsolete concept (EDAM)' SubClassOf 'Obsolete concept (EDAM)'
'process' DisjointWith 'Obsolete concept (EDAM)'
'material entity' DisjointWith 'Obsolete concept (EDAM)'
'Obsolete concept (EDAM)' DisjointWith 'role'
'information content entity' DisjointWith 'Obsolete concept (EDAM)'
http://edamontology.org/topic_0091
Bioinformatics
'Bioinformatics' SubClassOf 'Computer science'
'Bioinformatics' SubClassOf 'Biology'
'Bioinformatics' SubClassOf 'Informatics'
http://edamontology.org/topic_0092
Data visualisation
'Data visualisation' SubClassOf 'Data management'
'Data visualisation' SubClassOf 'Computer science'
http://edamontology.org/topic_0090
Data search, query and retrieval
'Data search, query and retrieval' SubClassOf 'Data management'
'Data search, query and retrieval' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3127
DNA replication and recombination
'DNA replication and recombination' SubClassOf 'DNA binding sites'
'DNA replication and recombination' SubClassOf 'DNA'
http://edamontology.org/topic_3126
Nucleic acid repeats
'Nucleic acid repeats' SubClassOf 'Nucleic acid sites, features and motifs'
'Nucleic acid repeats' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1601
Nc statistic
'Nc statistic' SubClassOf 'Obsolete concept (EDAM)'
'Nc statistic' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3135
Signal or transit peptide
'Signal or transit peptide' SubClassOf 'Gene transcript features'
'Signal or transit peptide' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3139
Sequence tagged sites
'Sequence tagged sites' SubClassOf 'Nucleic acid sites, features and motifs'
'Sequence tagged sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1622
Disease report
'Disease report' SubClassOf 'has topic' some 'Pathology'
http://edamontology.org/data_2954
Article report
'Article report' SubClassOf 'Obsolete concept (EDAM)'
'Article report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_9000081
BioPerl
'BioPerl' SubClassOf 'has website homepage' value "http://www.bioperl.org"^^http://www.w3.org/2001/XMLSchema#string
'BioPerl' SubClassOf 'is executed in' some 'biological data processing'
'BioPerl' SubClassOf 'has license' some 'Artistic License v1.0'
'BioPerl' SubClassOf 'has declared status' some 'Live'
'BioPerl' SubClassOf 'has interface' some 'application programming interface'
'BioPerl' SubClassOf 'has version' value '1.6.9'
http://www.ebi.ac.uk/swo/SWO_9000083
DNDC
'DNDC' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'tab delimited file format'))
'DNDC' SubClassOf 'has interface' some 'graphical user interface'
'DNDC' SubClassOf 'is executed in' some 'modelling'
'DNDC' SubClassOf 'software'
'DNDC' SubClassOf 'has website homepage' value "http://ecobas.org/www-server/rem/mdb/dndc.html"^^http://www.w3.org/2001/XMLSchema#string
'DNDC' SubClassOf 'has interface' some 'command-line interface'
'DNDC' SubClassOf 'has website homepage' value "http://www.dndc.sr.unh.edu/"^^http://www.w3.org/2001/XMLSchema#string
'DNDC' SubClassOf 'output of' some
('software development process' and ('has participant' value 'University of New Hampshire'))
'DNDC' SubClassOf 'software with command line interface'
http://www.ebi.ac.uk/swo/SWO_9000089
DROID
'DROID' SubClassOf 'software'
'DROID' SubClassOf 'has license' some 'FreeBSD'
'DROID' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'The National Archives'))
'DROID' SubClassOf 'has interface' some 'graphical user interface'
'DROID' SubClassOf 'has website homepage' value "http://sourceforge.net/projects/droid/"^^http://www.w3.org/2001/XMLSchema#string
'DROID' SubClassOf 'has version' value '6.02'
'DROID' SubClassOf 'has interface' some 'command-line interface'
'DROID' SubClassOf 'software with command line interface'
http://edamontology.org/format_1563
SMART domain assignment report format
'SMART domain assignment report format' SubClassOf 'Obsolete concept (EDAM)'
'SMART domain assignment report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1568
BIND entry format
'BIND entry format' SubClassOf 'Obsolete concept (EDAM)'
'BIND entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1569
IntAct entry format
'IntAct entry format' SubClassOf 'Obsolete concept (EDAM)'
'IntAct entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1636
Heatmap
Heat map
'Heatmap' SubClassOf 'data'
'Heatmap' SubClassOf 'Gene expression data'
'Heatmap' SubClassOf http://edamontology.org/data_3768
http://edamontology.org/data_2968
Image
'Image' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_1634
Linkage disequilibrium (report)
'Linkage disequilibrium (report)' SubClassOf 'Obsolete concept (EDAM)'
'Linkage disequilibrium (report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3169
ChIP-seq
'ChIP-seq' SubClassOf 'Obsolete concept (EDAM)'
'ChIP-seq' SubClassOf 'Sequencing'
'ChIP-seq' SubClassOf http://edamontology.org/topic_3656
http://edamontology.org/data_2965
2D PAGE gel report
'2D PAGE gel report' SubClassOf 'Obsolete concept (EDAM)'
'2D PAGE gel report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2966
Oligonucleotide probe sets annotation
'Oligonucleotide probe sets annotation' SubClassOf 'Oligonucleotide probe annotation'
'Oligonucleotide probe sets annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2967
Microarray image
'Microarray image' SubClassOf 'Obsolete concept (EDAM)'
'Microarray image' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2961
Gene regulatory network report
'Gene regulatory network report' SubClassOf 'Obsolete concept (EDAM)'
'Gene regulatory network report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_9000070
Microsoft Excel
'Microsoft Excel' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Microsoft'))
'Microsoft Excel' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'XLS spreadsheet'))
'Microsoft Excel' SubClassOf 'is executed in' some 'spreadsheet editing'
'Microsoft Excel' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Microsoft'))
'Microsoft Excel' SubClassOf 'has interface' some 'graphical user interface'
'Microsoft Excel' SubClassOf 'has license' some 'Proprietary commercial software license'
'Microsoft Excel' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'XLS spreadsheet'))
'Microsoft Excel' SubClassOf 'software'
'Microsoft Excel' SubClassOf 'Microsoft developed software'
http://www.ebi.ac.uk/swo/SWO_9000072
Microsoft Windows
'Microsoft Windows' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Microsoft'))
'Microsoft Windows' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Microsoft'))
'Microsoft Windows' SubClassOf 'software'
'Microsoft Windows' SubClassOf 'is executed in' some 'manage computer operations'
'Microsoft Windows' SubClassOf 'has interface' some 'graphical user interface'
'Microsoft Windows' SubClassOf 'operating system'
'Microsoft Windows' SubClassOf 'Microsoft developed software'
http://www.ebi.ac.uk/swo/SWO_9000071
Microsoft Excel for Windows 2010
'Microsoft Excel for Windows 2010' SubClassOf 'has declared status' some 'Latest release'
'Microsoft Excel for Windows 2010' SubClassOf 'has version' value 'Microsoft 2010 version'
'Microsoft Excel for Windows 2010' SubClassOf 'has declared status' some 'Live'
'Microsoft Excel for Windows 2010' SubClassOf 'has release date' value "2010-06-15T0:00:00"^^http://www.w3.org/2001/XMLSchema#string
'Microsoft Excel for Windows 2010' SubClassOf 'has version' value 'Excel 14'
http://www.ebi.ac.uk/swo/SWO_9000074
Windows XP
'Windows XP' SubClassOf 'has version' value 'Microsoft XP'
'Windows XP' SubClassOf 'has release date' value "2001-10-25T0:00:00"^^http://www.w3.org/2001/XMLSchema#string
'Windows XP' SubClassOf 'has declared status' some 'Superseded'
'Windows XP' SubClassOf 'has version' value 'Windows 5.1'
http://www.ebi.ac.uk/swo/SWO_9000073
Windows Vista
'Windows Vista' SubClassOf 'has release date' value "2006-11-08T0:00:00"^^http://www.w3.org/2001/XMLSchema#string
'Windows Vista' SubClassOf 'has version' value 'Windows 6.0'
'Windows Vista' SubClassOf 'directly preceded by' some 'Windows XP'
http://www.ebi.ac.uk/swo/SWO_9000076
software suite
'software suite' EquivalentTo 'software' and ('has_part' some 'software')
http://www.ebi.ac.uk/swo/SWO_9000075
Microsoft Office 2001
'Microsoft Office 2001' SubClassOf 'has_part' some 'Microsoft Word 2001'
'Microsoft Office 2001' SubClassOf 'software'
'Microsoft Office 2001' SubClassOf 'has_part' some 'Microsoft Excel 2002'
'Microsoft Office 2001' SubClassOf 'software suite'
http://www.ebi.ac.uk/swo/SWO_9000078
Annotare
'Annotare' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'MAGE-TAB'))
'Annotare' SubClassOf 'is executed in' some 'annotation editing'
'Annotare' SubClassOf 'has license' some 'MIT License'
'Annotare' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'MAGE-TAB'))
'Annotare' SubClassOf 'has declared status' some 'Latest release'
'Annotare' SubClassOf 'has website homepage' value "http://code.google.com/p/annotare/"^^http://www.w3.org/2001/XMLSchema#string
'Annotare' SubClassOf 'has interface' some 'graphical user interface'
'Annotare' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Stanford University'))
'Annotare' SubClassOf 'software'
'Annotare' SubClassOf 'has version' value '1'
'Annotare' SubClassOf 'MAGE-TAB inputting software'
http://www.ebi.ac.uk/swo/SWO_9000077
Adobe Acrobat Reader
'Adobe Acrobat Reader' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Adobe Systems'))
'Adobe Acrobat Reader' SubClassOf 'has website homepage' value "http://get.adobe.com/reader/"^^http://www.w3.org/2001/XMLSchema#string
'Adobe Acrobat Reader' SubClassOf 'is executed in' some 'file rendering'
'Adobe Acrobat Reader' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'pdf'))
'Adobe Acrobat Reader' SubClassOf 'has license' some 'Proprietary commercial software license'
'Adobe Acrobat Reader' SubClassOf 'has interface' some 'graphical user interface'
'Adobe Acrobat Reader' SubClassOf 'has declared status' some 'Maintained'
'Adobe Acrobat Reader' SubClassOf 'has version' value 'Adobe Acrobat 10.1'
http://www.ebi.ac.uk/swo/SWO_9000079
BioJava
'BioJava' SubClassOf 'has declared status' some 'Live'
'BioJava' SubClassOf 'has version' value '3.0.1'
'BioJava' SubClassOf 'output of' some
('software development process' and ('has participant' value 'The Community'))
'BioJava' SubClassOf 'has interface' some 'application programming interface'
'BioJava' SubClassOf 'has license' some 'lGPL'
'BioJava' SubClassOf 'has website homepage' value "http://biojava.org"^^http://www.w3.org/2001/XMLSchema#string
'BioJava' SubClassOf 'is executed in' some 'biological data processing'
http://edamontology.org/data_1646
Molecular weights standard fingerprint
'Molecular weights standard fingerprint' SubClassOf 'Peptide mass fingerprint'
'Molecular weights standard fingerprint' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3175
Structural variation
'Structural variation' SubClassOf 'Chromosomes'
'Structural variation' SubClassOf 'DNA'
http://edamontology.org/topic_3179
ChIP-on-chip
'ChIP-on-chip' SubClassOf 'Obsolete concept (EDAM)'
'ChIP-on-chip' SubClassOf http://edamontology.org/topic_3656
http://edamontology.org/topic_3178
RNA-Seq alignment
'RNA-Seq alignment' SubClassOf 'Obsolete concept (EDAM)'
'RNA-Seq alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2978
Reaction data
'Reaction data' SubClassOf 'data'
'Reaction data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/topic_3177
DNA-Seq
'DNA-Seq' SubClassOf 'Obsolete concept (EDAM)'
'DNA-Seq' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2971
Workflow data
'Workflow data' SubClassOf 'Obsolete concept (EDAM)'
'Workflow data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2972
Workflow
'Workflow' SubClassOf 'Obsolete concept (EDAM)'
'Workflow' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2973
Secondary structure data
'Secondary structure data' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1643
Affymetrix probe sets information library file
'Affymetrix probe sets information library file' SubClassOf 'Obsolete concept (EDAM)'
'Affymetrix probe sets information library file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1642
Affymetrix probe sets library file
'Affymetrix probe sets library file' SubClassOf 'Obsolete concept (EDAM)'
'Affymetrix probe sets library file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3171
DNA methylation
'DNA methylation' SubClassOf 'Obsolete concept (EDAM)'
'DNA methylation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3170
RNA-Seq
'RNA-Seq' SubClassOf 'Obsolete concept (EDAM)'
'RNA-Seq' SubClassOf 'Sequencing'
http://www.ebi.ac.uk/swo/SWO_9000021
Source code unavailable
'Source code available' DisjointWith 'Source code unavailable'
http://www.ebi.ac.uk/swo/SWO_9000020
Source code available
'Source code available' DisjointWith 'Source code unavailable'
http://www.ebi.ac.uk/swo/SWO_9000023
Platform unrestricted
'Platform restricted' DisjointWith 'Platform unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000022
Platform restricted
'Platform restricted' DisjointWith 'Platform unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000025
Number of installations unrestricted
'Number of installations restricted' DisjointWith 'Number of installations unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000024
Number of installations restricted
'Number of installations restricted' DisjointWith 'Number of installations unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000027
Number of users unrestricted
'Number of users restricted' DisjointWith 'Number of users unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000026
Number of users restricted
'Number of users restricted' DisjointWith 'Number of users unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000029
Time for use unrestricted
'Time for use restricted' DisjointWith 'Time for use unrestricted'
http://www.ebi.ac.uk/swo/SWO_9000028
Time for use restricted
'Time for use restricted' DisjointWith 'Time for use unrestricted'
http://edamontology.org/format_1500
Domainatrix 3D-1D scoring matrix format
'Domainatrix 3D-1D scoring matrix format' SubClassOf 'Obsolete concept (EDAM)'
'Domainatrix 3D-1D scoring matrix format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1658
Environmental information processing pathway report
'Environmental information processing pathway report' SubClassOf 'Obsolete concept (EDAM)'
'Environmental information processing pathway report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1657
Genetic information processing pathway report
'Genetic information processing pathway report' SubClassOf 'Obsolete concept (EDAM)'
'Genetic information processing pathway report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1656
Metabolic pathway report
'Metabolic pathway report' SubClassOf 'Obsolete concept (EDAM)'
'Metabolic pathway report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2986
Nucleic acid classification
'Nucleic acid classification' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2987
Classification report
'Classification report' SubClassOf 'Obsolete concept (EDAM)'
'Classification report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1659
Signal transduction pathway report
'Signal transduction pathway report' SubClassOf 'Obsolete concept (EDAM)'
'Signal transduction pathway report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2989
Protein features report (key folding sites)
'Protein features report (key folding sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (key folding sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2982
Sequence profile data
'Sequence profile data' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profile data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2983
Pathway or network data
'Pathway or network data' SubClassOf 'Obsolete concept (EDAM)'
'Pathway or network data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2984
Pathway or network report
'Pathway or network report' SubClassOf 'Report'
'Pathway or network report' SubClassOf 'has topic' some 'Molecular interactions, pathways and networks'
'Pathway or network report' SubClassOf http://edamontology.org/data_3753
http://edamontology.org/data_2980
Protein classification
'Protein classification' SubClassOf 'Obsolete concept (EDAM)'
'Protein classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2981
Sequence motif data
'Sequence motif data' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_9000016
No restrictions on derivatives
'No restrictions on derivatives' DisjointWith 'Restrictions on derivative software'
http://www.ebi.ac.uk/swo/SWO_9000018
derivative software not allowed
'derivative software not allowed' DisjointWith 'derivative software allowed'
http://www.ebi.ac.uk/swo/SWO_9000017
Restrictions on derivative software
'No restrictions on derivatives' DisjointWith 'Restrictions on derivative software'
http://kt.ijs.si/panovp/OntoDM#OntoDM_530819
ensemble algorithm
'ensemble algorithm' DisjointWith 'single generalization algorithm'
http://edamontology.org/data_1661
Disease pathway or network report
'Disease pathway or network report' SubClassOf 'Obsolete concept (EDAM)'
'Disease pathway or network report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1660
Cellular process pathways report
'Cellular process pathways report' SubClassOf 'Obsolete concept (EDAM)'
'Cellular process pathways report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1664
MIRIAM datatype
'MIRIAM datatype' SubClassOf 'Obsolete concept (EDAM)'
'MIRIAM datatype' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2991
Protein torsion angle data
'Protein torsion angle data' SubClassOf 'Protein property'
'Protein torsion angle data' SubClassOf 'Protein structure report'
http://edamontology.org/data_1663
Protein interaction networks
'Protein interaction networks' SubClassOf 'Obsolete concept (EDAM)'
'Protein interaction networks' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0922
Primers
'Primers' SubClassOf 'Gene transcription features'
'Primers' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1679
DaliLite log file
'DaliLite log file' SubClassOf 'Obsolete concept (EDAM)'
'DaliLite log file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1678
Tool log
'Tool log' SubClassOf 'Obsolete concept (EDAM)'
'Tool log' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1677
Job type
'Job type' SubClassOf 'Obsolete concept (EDAM)'
'Job type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2848
Bibliographic reference format
'Bibliographic reference format' SubClassOf 'is format of' some 'Abstract'
'Bibliographic reference format' SubClassOf 'is format of' some 'Citation'
http://edamontology.org/data_1672
CATH version information
'CATH version information' SubClassOf 'Obsolete concept (EDAM)'
'CATH version information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1671
Tool version information
'Tool version information' SubClassOf 'Obsolete concept (EDAM)'
'Tool version information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1670
Database version information
'Database version information' SubClassOf 'Obsolete concept (EDAM)'
'Database version information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1676
Job ID
'Job ID' SubClassOf 'Obsolete concept (EDAM)'
'Job ID' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1675
Job status
'Job status' SubClassOf 'Obsolete concept (EDAM)'
'Job status' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1674
Sequence database cross-references
'Sequence database cross-references' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database cross-references' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_9000030
Usage unrestricted
'Usage unrestricted' DisjointWith 'Usage restricted'
http://edamontology.org/data_1673
Swiss-Prot to PDB mapping
'Swiss-Prot to PDB mapping' SubClassOf 'Obsolete concept (EDAM)'
'Swiss-Prot to PDB mapping' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_9000031
Usage restricted
'Usage unrestricted' DisjointWith 'Usage restricted'
http://edamontology.org/format_1513
KEGG REACTION enzyme report format
'KEGG REACTION enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG REACTION enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1514
KEGG ENZYME enzyme report format
'KEGG ENZYME enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG ENZYME enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1515
REBASE proto enzyme report format
'REBASE proto enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'REBASE proto enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1516
REBASE withrefm enzyme report format
'REBASE withrefm enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'REBASE withrefm enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1511
IntEnz enzyme report format
'IntEnz enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'IntEnz enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1512
BRENDA enzyme report format
'BRENDA enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'BRENDA enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0224
Query and retrieval
'Query and retrieval' SubClassOf 'has output' some 'data'
'Query and retrieval' SubClassOf 'information processing'
'Query and retrieval' SubClassOf 'has topic' some 'Data search, query and retrieval'
'Query and retrieval' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_0225
Data retrieval (database cross-reference)
'Data retrieval (database cross-reference)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (database cross-reference)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0228
Data index analysis
'Data index analysis' SubClassOf 'Obsolete concept (EDAM)'
'Data index analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0229
Annotation retrieval (sequence)
'Annotation retrieval (sequence)' SubClassOf 'Obsolete concept (EDAM)'
'Annotation retrieval (sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0226
Annotation
'Annotation' SubClassOf 'Analysis'
'Annotation' SubClassOf 'has topic' some 'Ontology and terminology'
'Annotation' SubClassOf 'has input' some 'Ontology'
'Annotation' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_0227
Indexing
'Indexing' SubClassOf 'Utility operation'
'Indexing' SubClassOf 'has output' some 'Data index'
'Indexing' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/topic_0820
Membrane and lipoproteins
'Membrane and lipoproteins' SubClassOf 'Protein families'
'Membrane and lipoproteins' SubClassOf 'Proteins'
http://edamontology.org/topic_0821
Enzymes
'Enzymes' SubClassOf 'Protein families'
'Enzymes' SubClassOf 'Proteins'
http://edamontology.org/operation_0235
Sequence ambiguity calculation
'Sequence ambiguity calculation' SubClassOf 'has topic' some 'Sequence composition, complexity and repeats'
'Sequence ambiguity calculation' SubClassOf 'has output' some 'Sequence ambiguity report'
http://edamontology.org/operation_0236
Sequence composition calculation
'Sequence composition calculation' SubClassOf 'has output' some 'Sequence composition report'
'Sequence composition calculation' SubClassOf 'has topic' some 'Sequence composition, complexity and repeats'
http://edamontology.org/operation_0234
Sequence complexity calculation
'Sequence complexity calculation' SubClassOf 'has output' some 'Sequence complexity report'
'Sequence complexity calculation' SubClassOf 'has topic' some 'Sequence composition, complexity and repeats'
http://edamontology.org/operation_0239
Sequence signature recognition
'Sequence signature recognition' SubClassOf 'has output' some 'Sequence signature matches'
'Sequence signature recognition' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence signature recognition' SubClassOf 'Sequence motif processing'
http://edamontology.org/operation_0237
Repeat sequence analysis
'Repeat sequence analysis' SubClassOf 'has topic' some 'Sequence composition, complexity and repeats'
http://edamontology.org/operation_0238
Sequence motif discovery
'Sequence motif discovery' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence motif discovery' SubClassOf 'has output' some 'Sequence signature matches'
'Sequence motif discovery' SubClassOf 'Sequence motif processing'
http://edamontology.org/data_2201
Sequence record full
'Sequence record full' SubClassOf 'Obsolete concept (EDAM)'
'Sequence record full' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2871
Sequence tagged site (STS) mapping
'Sequence tagged site (STS) mapping' SubClassOf 'has output' some 'Sequence map'
http://edamontology.org/operation_0268
Protein super-secondary structure prediction
'Protein super-secondary structure prediction' SubClassOf 'has output' some 'Protein features'
http://edamontology.org/operation_0267
Protein secondary structure prediction
'Protein secondary structure prediction' SubClassOf 'Prediction and recognition (protein)'
'Protein secondary structure prediction' SubClassOf 'has topic' some 'Protein structure prediction'
http://edamontology.org/data_2217
Tumor annotation
'Tumor annotation' SubClassOf 'Obsolete concept (EDAM)'
'Tumor annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2218
Server metadata
'Server metadata' SubClassOf 'Obsolete concept (EDAM)'
'Server metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2212
Mutation annotation (basic)
'Mutation annotation (basic)' SubClassOf 'Obsolete concept (EDAM)'
'Mutation annotation (basic)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2213
Mutation annotation (prevalence)
'Mutation annotation (prevalence)' SubClassOf 'Obsolete concept (EDAM)'
'Mutation annotation (prevalence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0261
Nucleic acid property processing
'Nucleic acid property processing' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid property processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2214
Mutation annotation (prognostic)
'Mutation annotation (prognostic)' SubClassOf 'Obsolete concept (EDAM)'
'Mutation annotation (prognostic)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2215
Mutation annotation (functional)
'Mutation annotation (functional)' SubClassOf 'Obsolete concept (EDAM)'
'Mutation annotation (functional)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0264
Splice transcript prediction
'Splice transcript prediction' SubClassOf 'has topic' some 'Gene structure'
http://edamontology.org/operation_0265
Frameshift detection
'Frameshift detection' SubClassOf 'has topic' some 'Sequencing'
http://edamontology.org/operation_0262
Nucleic acid property calculation
'Nucleic acid property calculation' SubClassOf 'has output' some 'Nucleic acid property'
http://edamontology.org/operation_0279
Nucleic acid folding prediction
'Nucleic acid folding prediction' SubClassOf 'has topic' some 'Nucleic acid structure prediction'
'Nucleic acid folding prediction' SubClassOf 'has output' some 'Nucleic acid folding report'
http://edamontology.org/operation_0278
RNA secondary structure prediction
'RNA secondary structure prediction' SubClassOf 'has topic' some 'Nucleic acid structure prediction'
'RNA secondary structure prediction' SubClassOf 'has output' some 'RNA secondary structure'
http://edamontology.org/data_2223
Ontology metadata
'Ontology metadata' SubClassOf 'has topic' some 'Ontology and terminology'
http://edamontology.org/operation_0271
Structure prediction
'Structure prediction' SubClassOf 'has topic' some 'Structure prediction'
'Structure prediction' SubClassOf 'has output' some 'Structure'
http://edamontology.org/operation_0272
Residue interaction prediction
'Residue interaction prediction' SubClassOf 'has topic' some 'Protein folding, stability and design'
http://edamontology.org/operation_0270
Transmembrane protein analysis
'Transmembrane protein analysis' SubClassOf 'has topic' some 'Membrane and lipoproteins'
http://edamontology.org/operation_0275
Protein-protein interaction prediction (from protein structure)
'Protein-protein interaction prediction (from protein structure)' SubClassOf 'Protein-protein interaction prediction'
'Protein-protein interaction prediction (from protein structure)' SubClassOf 'Protein feature detection'
'Protein-protein interaction prediction (from protein structure)' SubClassOf 'Protein structure analysis'
'Protein-protein interaction prediction (from protein structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0276
Protein interaction network analysis
'Protein interaction network analysis' SubClassOf 'has output' some 'Pathway or network report'
'Protein interaction network analysis' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/operation_0273
Protein interaction raw data analysis
'Protein interaction raw data analysis' SubClassOf 'has input' some 'Protein interaction raw data'
'Protein interaction raw data analysis' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/operation_0274
Protein-protein interaction prediction (from protein sequence)
'Protein-protein interaction prediction (from protein sequence)' SubClassOf 'Protein-protein interaction prediction'
'Protein-protein interaction prediction (from protein sequence)' SubClassOf 'Protein function prediction'
'Protein-protein interaction prediction (from protein sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1458
Vienna local RNA secondary structure format
'Vienna local RNA secondary structure format' SubClassOf 'Textual format'
http://edamontology.org/operation_0246
Protein domain recognition
'Protein domain recognition' SubClassOf 'has topic' some 'Protein domains and folds'
http://edamontology.org/operation_0245
Protein structural motif recognition
'Protein structural motif recognition' SubClassOf 'has topic' some 'Protein structural motifs and surfaces'
http://edamontology.org/operation_0248
Residue interaction calculation
'Residue interaction calculation' SubClassOf 'has output' some 'Protein residue interactions'
'Residue interaction calculation' SubClassOf 'has topic' some 'Protein folding, stability and design'
http://edamontology.org/operation_0249
Torsion angle calculation
'Torsion angle calculation' SubClassOf 'has output' some 'Protein torsion angle data'
http://edamontology.org/data_2235
Raw SCOP domain classification
'Raw SCOP domain classification' SubClassOf 'Obsolete concept (EDAM)'
'Raw SCOP domain classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2236
Raw CATH domain classification
'Raw CATH domain classification' SubClassOf 'Obsolete concept (EDAM)'
'Raw CATH domain classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0242
Conserved transcription regulatory sequence identification
'Conserved transcription regulatory sequence identification' SubClassOf 'Nucleic acid sequence feature detection'
http://edamontology.org/operation_0243
Protein property calculation (from structure)
'Protein property calculation (from structure)' SubClassOf 'has topic' some 'Protein structure analysis'
'Protein property calculation (from structure)' SubClassOf 'has output' some 'Protein property'
http://edamontology.org/operation_0240
Sequence motif comparison
'Sequence motif comparison' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence motif comparison' SubClassOf 'has output' some 'Sequence signature matches'
'Sequence motif comparison' SubClassOf 'Sequence motif processing'
http://edamontology.org/operation_0241
Transcription regulatory sequence analysis
'Transcription regulatory sequence analysis' SubClassOf 'Obsolete concept (EDAM)'
'Transcription regulatory sequence analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0257
Data retrieval (sequence alignment)
'Data retrieval (sequence alignment)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (sequence alignment)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0258
Sequence alignment analysis
'Sequence alignment analysis' SubClassOf 'has input' some 'Sequence alignment'
http://edamontology.org/operation_0255
Feature table query
'Feature table query' SubClassOf 'Obsolete concept (EDAM)'
'Feature table query' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0256
Sequence feature comparison
'Sequence feature comparison' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence feature comparison' SubClassOf 'has input' some 'Feature table'
'Sequence feature comparison' SubClassOf 'has input' some 'Sequence record'
http://edamontology.org/data_2249
DTD
'DTD' SubClassOf 'Obsolete concept (EDAM)'
'DTD' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2245
Sequence set (bootstrapped)
'Sequence set (bootstrapped)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence set (bootstrapped)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0250
Protein property calculation
'Protein property calculation' SubClassOf 'has topic' some 'Protein properties'
'Protein property calculation' SubClassOf 'has output' some 'Protein property'
http://edamontology.org/data_2247
Phylogenetic consensus tree
'Phylogenetic consensus tree' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic consensus tree' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2248
Schema
'Schema' SubClassOf 'Obsolete concept (EDAM)'
'Schema' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0253
Sequence feature detection
'Sequence feature detection' SubClassOf 'has output' some 'Sequence features'
'Sequence feature detection' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/data_2242
Phylogenetic property values
'Phylogenetic property values' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic property values' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0254
Data retrieval (feature table)
'Data retrieval (feature table)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (feature table)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0252
Peptide immunogenicity prediction
'Peptide immunogenicity prediction' SubClassOf 'has topic' some 'Immunology'
'Peptide immunogenicity prediction' SubClassOf 'has output' some 'Peptide immunogenicity data'
http://edamontology.org/data_2240
Heterogen annotation
'Heterogen annotation' SubClassOf 'Obsolete concept (EDAM)'
'Heterogen annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1475
PDB database entry format
'PDB database entry format' SubClassOf 'is format of' some 'Structure'
http://www.ebi.ac.uk/efo/swo/SWO_0000507
cosmoGUI
'cosmoGUI' SubClassOf 'is executed in' some 'gene expression analysis'
'cosmoGUI' SubClassOf 'is encoded in' some 'R language'
'cosmoGUI' SubClassOf 'software'
'cosmoGUI' SubClassOf 'implements' some 'cosmo'
'cosmoGUI' SubClassOf 'has specified data input' some ('has format specification' only
('FASTA format' or 'R data frame'))
'cosmoGUI' SubClassOf 'has specified data output' some
('Image' and ('HTML report' or ('has format specification' only 'R data frame')))
'cosmoGUI' SubClassOf 'is published by' value 'Bioconductor'
'cosmoGUI' SubClassOf 'BioConductor Software'
'cosmoGUI' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000505
copa
'copa' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'copa' SubClassOf 'is encoded in' some 'R language'
'copa' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'copa' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'copa' SubClassOf 'software'
'copa' SubClassOf 'implements' some
(''FDR'' and 'Median Average Difference Algorithm')
'copa' SubClassOf 'is published by' value 'Bioconductor'
'copa' SubClassOf 'R software'
'copa' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000506
cosmo
'cosmo' SubClassOf 'implements' some 'Cosmo'
'cosmo' SubClassOf 'is encoded in' some 'R language'
'cosmo' SubClassOf 'software'
'cosmo' SubClassOf 'is published by' value 'Bioconductor'
'cosmo' SubClassOf 'is executed in' some 'gene expression analysis'
'cosmo' SubClassOf 'has specified data output' some
('Image' and ('HTML report' or ('has format specification' only 'R data frame')))
'cosmo' SubClassOf 'has specified data input' some ('has format specification' only
('FASTA format' or 'R data frame'))
'cosmo' SubClassOf 'BioConductor Software'
'cosmo' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000504
convert
'convert' SubClassOf 'software'
'convert' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'convert' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'convert' SubClassOf 'is encoded in' some 'R language'
'convert' SubClassOf 'is published by' value 'Bioconductor'
'convert' SubClassOf 'BioConductor Software'
'convert' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000501
'codelink'
''codelink'' SubClassOf 'is encoded in' some 'R language'
''codelink'' SubClassOf 'has specified data input' some
('XML' or 'Text data set')
''codelink'' SubClassOf 'software'
''codelink'' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
''codelink'' SubClassOf 'is executed in' some
('background correction' and 'data normalization' and 'descriptive statistical calculation' and 'differential expression analysis')
''codelink'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000510
crlmm
'crlmm' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'crlmm' SubClassOf 'is executed in' some 'data normalization'
'crlmm' SubClassOf 'implements' some 'CRLMM algorithm'
'crlmm' SubClassOf 'is published by' value 'Bioconductor'
'crlmm' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'rda'))
'crlmm' SubClassOf 'software'
'crlmm' SubClassOf 'is encoded in' some 'R language'
'crlmm' SubClassOf 'BioConductor Software'
'crlmm' SubClassOf 'R software'
http://edamontology.org/operation_2008
siRNA duplex prediction
'siRNA duplex prediction' SubClassOf 'has topic' some 'Functional, regulatory and non-coding RNA'
http://edamontology.org/data_2252
XSLT stylesheet
'XSLT stylesheet' SubClassOf 'Obsolete concept (EDAM)'
'XSLT stylesheet' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2250
XML Schema
'XML Schema' SubClassOf 'Obsolete concept (EDAM)'
'XML Schema' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2251
Relax-NG schema
'Relax-NG schema' SubClassOf 'Obsolete concept (EDAM)'
'Relax-NG schema' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000514
daMA
'daMA' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'daMA' SubClassOf 'software'
'daMA' SubClassOf 'is executed in' some 'differential expression analysis'
'daMA' SubClassOf 'is published by' value 'Bioconductor'
'daMA' SubClassOf 'is encoded in' some 'R language'
'daMA' SubClassOf 'implements' some
(''FDR'' and 'f-test')
'daMA' SubClassOf 'has specified data input' some 'Gene expression data'
'daMA' SubClassOf 'R software'
'daMA' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000512
ctc
'ctc' SubClassOf 'is encoded in' some 'R language'
'ctc' SubClassOf 'software'
'ctc' SubClassOf 'has specified data output' some
('Heatmap' and ('has format specification' only
('newick' or 'cdt' or 'gtr')))
'ctc' SubClassOf 'has specified data input' some 'Text data set'
'ctc' SubClassOf 'implements' some 'Hierarchical clustering'
'ctc' SubClassOf 'is published by' value 'Bioconductor'
'ctc' SubClassOf 'R software'
'ctc' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000513
dChip
'dChip' SubClassOf 'is published by' value 'Havard School of Public Health'
http://edamontology.org/operation_3349
Bibliography generation
'Bibliography generation' SubClassOf 'has output' some 'Bibliography'
http://www.ebi.ac.uk/efo/swo/SWO_0000521
'domainsignatures'
''domainsignatures'' SubClassOf 'has specified data input' some 'Gene list'
''domainsignatures'' SubClassOf 'is executed in' some 'descriptive statistical calculation'
''domainsignatures'' SubClassOf 'has specified data output' some 'Graph plot'
''domainsignatures'' SubClassOf 'implements' some 'Gene-Set Enrichment Analysis'
''domainsignatures'' SubClassOf 'is encoded in' some 'R language'
''domainsignatures'' SubClassOf 'software'
''domainsignatures'' SubClassOf 'R software'
http://edamontology.org/operation_3348
Sequence checksum generation
'Sequence checksum generation' SubClassOf 'has topic' some 'Data acquisition'
'Sequence checksum generation' SubClassOf 'has input' some 'Sequence'
http://www.ebi.ac.uk/efo/swo/SWO_0000522
'dualKS'
''dualKS'' SubClassOf 'has specified data input' some 'Gene expression dataset'
''dualKS'' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
''dualKS'' SubClassOf 'is encoded in' some 'R language'
''dualKS'' SubClassOf 'implements' some
('Kolmogorov Smirnov rank-sum based algorithm' and 'Bootstrap')
''dualKS'' SubClassOf 'software'
''dualKS'' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
''dualKS'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000520
'diffGeneAnalysis'
''diffGeneAnalysis'' SubClassOf 'software'
''diffGeneAnalysis'' SubClassOf 'has specified data output' some
('CSV data set' and 'Graph plot')
''diffGeneAnalysis'' SubClassOf 'implements' some 'Associative T method'
''diffGeneAnalysis'' SubClassOf 'has specified data input' some 'CSV data set'
''diffGeneAnalysis'' SubClassOf 'is encoded in' some 'R language'
''diffGeneAnalysis'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000529
'explorase'
''explorase'' SubClassOf 'has specified data input' some 'CSV data set'
''explorase'' SubClassOf 'is encoded in' some 'R language'
''explorase'' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
''explorase'' SubClassOf 'implements' some 'Linear modelling'
''explorase'' SubClassOf 'software'
''explorase'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000527
'edgeR'
''edgeR'' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
''edgeR'' SubClassOf 'implements' some
('Empirical Bayes rule' and 'Negative binomial distribution')
''edgeR'' SubClassOf 'has specified data input' some 'Digital gene expression (DGE) datasets'
''edgeR'' SubClassOf 'is executed in' some 'differential expression analysis'
''edgeR'' SubClassOf 'software'
''edgeR'' SubClassOf 'is encoded in' some 'R language'
''edgeR'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000528
exonmap
'exonmap' SubClassOf 'is encoded in' some 'R language'
'exonmap' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'exonmap' SubClassOf 'is executed in' some 'differential expression analysis'
'exonmap' SubClassOf 'implements' some
(''FDR'' and 'RMA')
'exonmap' SubClassOf 'software'
'exonmap' SubClassOf 'has specified data input' some ('has format specification' only
('CDF binary format' or 'CEL binary format' or 'CDF ASCII format' or 'CEL ASCII format'))
'exonmap' SubClassOf 'is published by' value 'Bioconductor'
'exonmap' SubClassOf 'has specified data input' some ('has format specification' only 'covdesc file')
'exonmap' SubClassOf 'BioConductor Software'
'exonmap' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000525
ecolitk
'ecolitk' SubClassOf 'is encoded in' some 'R language'
'ecolitk' SubClassOf 'software'
'ecolitk' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'ecolitk' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'ecolitk' SubClassOf 'is published by' value 'Bioconductor'
'ecolitk' SubClassOf 'has specified data input' some 'Meta data'
'ecolitk' SubClassOf 'BioConductor Software'
'ecolitk' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000526
edd
'edd' SubClassOf 'is encoded in' some 'R language'
'edd' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'edd' SubClassOf 'software'
'edd' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'edd' SubClassOf 'is published by' value 'Bioconductor'
'edd' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'edd' SubClassOf 'BioConductor Software'
'edd' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000523
dyebias
'dyebias' SubClassOf 'is executed in' some
('averaging' and 'correction' and 'data normalization')
'dyebias' SubClassOf 'implements' some 'GASSCO method'
'dyebias' SubClassOf 'is encoded in' some 'R language'
'dyebias' SubClassOf 'has specified data input' some
(('Text data set' and ('has format specification' only 'MAGE-TAB')) or ('has format specification' only 'R data frame'))
'dyebias' SubClassOf 'is published by' value 'Bioconductor'
'dyebias' SubClassOf 'software'
'dyebias' SubClassOf 'has specified data output' some 'Text data set'
'dyebias' SubClassOf 'R software'
'dyebias' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000532
factDesign
'factDesign' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'factDesign' SubClassOf 'software'
'factDesign' SubClassOf 'is encoded in' some 'R language'
'factDesign' SubClassOf 'has specified data output' some
('Heatmap' and 'Text data set' and 'Graph plot')
'factDesign' SubClassOf 'implements' some
(''ANOVA'' and ''FDR'' and 'RMA' and 'Linear modelling')
'factDesign' SubClassOf 'is published by' value 'Bioconductor'
'factDesign' SubClassOf 'BioConductor Software'
'factDesign' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000533
fbat
'fbat' SubClassOf 'software'
'fbat' SubClassOf 'is encoded in' some 'R language'
'fbat' SubClassOf 'implements' some
('Hardy-Weinberg equilibrium' and 'Markov Chain Monte Carlo')
'fbat' SubClassOf 'has specified data input' some ('has format specification' only 'pedigree data file')
'fbat' SubClassOf 'is published by' value 'Bioconductor'
'fbat' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'fbat' SubClassOf 'BioConductor Software'
'fbat' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000530
'externalVector'
''externalVector'' SubClassOf 'software'
''externalVector'' SubClassOf 'is encoded in' some 'R language'
''externalVector'' SubClassOf 'R software'
http://edamontology.org/operation_0289
Sequence distance matrix generation
'Sequence distance matrix generation' SubClassOf 'has output' some 'Sequence distance matrix'
'Sequence distance matrix generation' SubClassOf 'has topic' some 'Phylogeny'
http://edamontology.org/operation_0282
Genetic mapping
'Genetic mapping' SubClassOf 'has output' some 'Genetic map'
http://edamontology.org/operation_0283
Linkage analysis
'Linkage analysis' SubClassOf 'has output' some 'Genetic linkage report'
'Linkage analysis' SubClassOf 'has topic' some 'Mapping'
http://edamontology.org/operation_0280
Data retrieval (restriction enzyme annotation)
'Data retrieval (restriction enzyme annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (restriction enzyme annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0281
Genetic marker identification
'Genetic marker identification' SubClassOf 'Obsolete concept (EDAM)'
'Genetic marker identification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0286
Codon usage analysis
'Codon usage analysis' SubClassOf 'has output' some 'Codon usage data'
'Codon usage analysis' SubClassOf 'has topic' some 'Gene expression'
'Codon usage analysis' SubClassOf 'has input' some 'Codon usage table'
'Codon usage analysis' SubClassOf 'has input' some 'Nucleic acid sequence'
'Codon usage analysis' SubClassOf 'has output' some 'Codon usage table'
http://edamontology.org/operation_0287
Base position variability plotting
'Base position variability plotting' SubClassOf 'has output' some 'Base position variability plot'
'Base position variability plotting' SubClassOf 'has topic' some 'Gene structure'
http://edamontology.org/operation_0284
Codon usage table generation
'Codon usage table generation' SubClassOf 'has output' some 'Codon usage table'
http://www.ebi.ac.uk/efo/swo/SWO_0000538
flowCore
'flowCore' SubClassOf 'is encoded in' some 'R language'
'flowCore' SubClassOf 'software'
'flowCore' SubClassOf 'has specified data input' some ('has format specification' only
('R data frame' or 'Data File Standard for Flow Cytometry'))
'flowCore' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'flowCore' SubClassOf 'is published by' value 'Bioconductor'
'flowCore' SubClassOf 'R software'
'flowCore' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000539
flowFlowJo
'flowFlowJo' SubClassOf 'has specified data output' some ('has format specification' only 'Data File Standard for Flow Cytometry')
'flowFlowJo' SubClassOf 'is published by' value 'Bioconductor'
'flowFlowJo' SubClassOf 'is executed in' some
('parse' and 'descriptive statistical calculation')
'flowFlowJo' SubClassOf 'has specified data input' some ('has format specification' only 'XML')
'flowFlowJo' SubClassOf 'is encoded in' some 'R language'
'flowFlowJo' SubClassOf 'software'
'flowFlowJo' SubClassOf 'R software'
'flowFlowJo' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000536
flagme
'flagme' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'flagme' SubClassOf 'is executed in' some 'data normalization'
'flagme' SubClassOf 'has specified data input' some ('has format specification' only
('CDF binary format' or 'CDF ASCII format'))
'flagme' SubClassOf 'is encoded in' some 'R language'
'flagme' SubClassOf 'is published by' value 'Bioconductor'
'flagme' SubClassOf 'implements' some
('AMDIS' and 'Dynamic programming algorithm')
'flagme' SubClassOf 'software'
'flagme' SubClassOf 'BioConductor Software'
'flagme' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000537
flowClust
'flowClust' SubClassOf 'is encoded in' some 'R language'
'flowClust' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'flowClust' SubClassOf 'is published by' value 'Bioconductor'
'flowClust' SubClassOf 'has specified data input' some ('has format specification' only
('R data frame' or 'Data File Standard for Flow Cytometry'))
'flowClust' SubClassOf 'software'
'flowClust' SubClassOf 'implements' some
('Bayesian Model' and 'Expectation-Maximization(EM) algorithm' and 'Multivariate t mixture models')
'flowClust' SubClassOf 'R software'
'flowClust' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000534
fdrame
'fdrame' SubClassOf 'is encoded in' some 'R language'
'fdrame' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'fdrame' SubClassOf 'is executed in' some 'gene expression analysis'
'fdrame' SubClassOf 'is published by' value 'Bioconductor'
'fdrame' SubClassOf 'implements' some
(''ANOVA'' and ''FDR'')
'fdrame' SubClassOf 'software'
'fdrame' SubClassOf 'has specified data output' some 'Graph plot'
'fdrame' SubClassOf 'BioConductor Software'
'fdrame' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000543
flowViz
'flowViz' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'flowViz' SubClassOf 'software'
'flowViz' SubClassOf 'is published by' value 'Bioconductor'
'flowViz' SubClassOf 'is encoded in' some 'R language'
'flowViz' SubClassOf 'has specified data input' some ('has format specification' only 'Data File Standard for Flow Cytometry')
'flowViz' SubClassOf 'R software'
'flowViz' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000544
gaga
'gaga' SubClassOf 'software'
'gaga' SubClassOf 'implements' some
(''FDR'' and 'Gamma-Gamma hierarchical model')
'gaga' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'gaga' SubClassOf 'is published by' value 'Bioconductor'
'gaga' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'gaga' SubClassOf 'is encoded in' some 'R language'
'gaga' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'gaga' SubClassOf 'BioConductor Software'
'gaga' SubClassOf 'R software'
http://edamontology.org/operation_0299
3D profile-to-3D profile alignment
'3D profile-to-3D profile alignment' SubClassOf 'Alignment'
'3D profile-to-3D profile alignment' SubClassOf 'has input' some 'Structural profile'
'3D profile-to-3D profile alignment' SubClassOf 'has output' some 'Structural (3D) profile alignment'
http://www.ebi.ac.uk/efo/swo/SWO_0000541
flowStats
'flowStats' SubClassOf 'is published by' value 'Bioconductor'
'flowStats' SubClassOf 'is executed in' some 'data normalization'
'flowStats' SubClassOf 'has specified data input' some ('has format specification' only 'Data File Standard for Flow Cytometry')
'flowStats' SubClassOf 'software'
'flowStats' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'flowStats' SubClassOf 'is encoded in' some 'R language'
'flowStats' SubClassOf 'BioConductor Software'
'flowStats' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000542
flowUtils
'flowUtils' SubClassOf 'has specified data input' some ('has format specification' only 'Data File Standard for Flow Cytometry')
'flowUtils' SubClassOf 'is executed in' some 'parse'
'flowUtils' SubClassOf 'has specified data output' some ('has format specification' only 'XML')
'flowUtils' SubClassOf 'is published by' value 'Bioconductor'
'flowUtils' SubClassOf 'is encoded in' some 'R language'
'flowUtils' SubClassOf 'software'
'flowUtils' SubClassOf 'R software'
'flowUtils' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000540
flowQ
'flowQ' SubClassOf 'is published by' value 'Bioconductor'
'flowQ' SubClassOf 'is encoded in' some 'R language'
'flowQ' SubClassOf 'has specified data input' some ('has format specification' only 'Data File Standard for Flow Cytometry')
'flowQ' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'flowQ' SubClassOf 'software'
'flowQ' SubClassOf 'BioConductor Software'
'flowQ' SubClassOf 'R software'
http://edamontology.org/data_2289
Sequence identifier (nucleic acid)
'Sequence identifier (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence identifier (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0293
Hybrid sequence alignment construction
'Hybrid sequence alignment construction' SubClassOf 'Obsolete concept (EDAM)'
'Hybrid sequence alignment construction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0291
Sequence clustering
'Sequence clustering' SubClassOf 'has output' some 'Sequence cluster'
'Sequence clustering' SubClassOf 'has topic' some 'Sequence comparison'
http://edamontology.org/operation_0292
Sequence alignment generation
'Sequence alignment generation' SubClassOf 'has output' some 'Sequence alignment'
'Sequence alignment generation' SubClassOf 'Sequence analysis'
http://edamontology.org/operation_0297
3D profile generation
'3D profile generation' SubClassOf 'has output' some 'Structural profile'
'3D profile generation' SubClassOf 'has input' some 'Structure alignment'
'3D profile generation' SubClassOf 'has input' some 'Structure'
http://edamontology.org/operation_0298
Profile-to-profile alignment
'Profile-to-profile alignment' SubClassOf 'has output' some 'Sequence profile alignment'
'Profile-to-profile alignment' SubClassOf 'has input' some 'Sequence profile'
'Profile-to-profile alignment' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/operation_0295
Structure alignment
'Structure alignment' SubClassOf 'has output' some 'Structure alignment'
'Structure alignment' SubClassOf 'Structure analysis'
http://edamontology.org/data_2288
Sequence identifier (protein)
'Sequence identifier (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence identifier (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0296
Sequence profile generation
'Sequence profile generation' SubClassOf 'has input' some 'Sequence alignment'
'Sequence profile generation' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence profile generation' SubClassOf 'has output' some 'Sequence profile'
http://edamontology.org/topic_1308
Matrix/scaffold attachment sites
'Matrix/scaffold attachment sites' SubClassOf 'Gene transcription features'
'Matrix/scaffold attachment sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0290
Sequence redundancy removal
'Sequence redundancy removal' SubClassOf 'has output' some 'Sequence'
http://edamontology.org/topic_1302
PolyA signal or sites
'PolyA signal or sites' SubClassOf 'Gene transcript features'
'PolyA signal or sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000549
'genArise'
''genArise'' SubClassOf 'has specified data output' some 'Graph plot'
''genArise'' SubClassOf 'software'
''genArise'' SubClassOf 'has specified data input' some 'Text data set'
''genArise'' SubClassOf 'is encoded in' some 'R language'
''genArise'' SubClassOf 'is executed in' some
('correction' and 'data normalization' and 'differential expression analysis')
''genArise'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000547
gcrma
'gcrma' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'gcrma' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'gcrma' SubClassOf 'is encoded in' some 'R language'
'gcrma' SubClassOf 'is published by' value 'Bioconductor'
'gcrma' SubClassOf 'implements' some 'RMA'
'gcrma' SubClassOf 'software'
'gcrma' SubClassOf 'is executed in' some
('correction' and 'data normalization')
'gcrma' SubClassOf 'BioConductor Software'
'gcrma' SubClassOf 'R software'
http://edamontology.org/topic_1307
Splice sites
'Splice sites' SubClassOf 'Gene transcript features'
'Splice sites' SubClassOf 'RNA splicing'
'Splice sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_1304
CpG island and isochores
'CpG island and isochores' SubClassOf 'Gene transcription features'
'CpG island and isochores' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000545
'gaggle'
''gaggle'' SubClassOf 'is encoded in' some 'R language'
''gaggle'' SubClassOf 'software'
''gaggle'' SubClassOf 'R software'
http://edamontology.org/topic_1305
Restriction sites
'Restriction sites' SubClassOf 'DNA binding sites'
'Restriction sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000546
gcRMA quantification
'gcRMA quantification' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Bioconductor'))
http://www.ebi.ac.uk/efo/swo/SWO_0000555
genefilter
'genefilter' SubClassOf 'is encoded in' some 'R language'
'genefilter' SubClassOf 'is executed in' some 'differential expression analysis'
'genefilter' SubClassOf 'is published by' value 'Bioconductor'
'genefilter' SubClassOf 'has specified data input' some 'Gene expression dataset'
'genefilter' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'genefilter' SubClassOf 'implements' some 'k-nearest neighbour classification'
'genefilter' SubClassOf 'software'
'genefilter' SubClassOf 'R software'
'genefilter' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000550
gene2pathway
'gene2pathway' SubClassOf 'has specified data input' some 'Gene list'
'gene2pathway' SubClassOf 'is published by' value 'Bioconductor'
'gene2pathway' SubClassOf 'is encoded in' some 'R language'
'gene2pathway' SubClassOf 'software'
'gene2pathway' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'gene2pathway' SubClassOf 'implements' some 'Hierarchical clustering'
'gene2pathway' SubClassOf 'R software'
'gene2pathway' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000551
geneRecommender
'geneRecommender' SubClassOf 'software'
'geneRecommender' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'geneRecommender' SubClassOf 'has specified data input' some 'Gene list'
'geneRecommender' SubClassOf 'implements' some 'Gene Recommender algorithm'
'geneRecommender' SubClassOf 'is executed in' some
('data normalization' and 'differential expression analysis')
'geneRecommender' SubClassOf 'is published by' value 'Bioconductor'
'geneRecommender' SubClassOf 'is encoded in' some 'R language'
'geneRecommender' SubClassOf 'BioConductor Software'
'geneRecommender' SubClassOf 'R software'
http://edamontology.org/data_2296
Gene name (AceView)
'Gene name (AceView)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (AceView)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3245
Mass spectrometry data format
'Mass spectrometry data format' SubClassOf 'is format of' some 'Mass spectrometry data'
http://edamontology.org/data_2291
UniProt ID
'UniProt ID' SubClassOf 'is identifier of' some 'Sequence record'
http://edamontology.org/topic_1311
Operon
'Operon' SubClassOf 'Gene structure'
'Operon' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_1312
Promoters
'Promoters' SubClassOf 'Gene transcription features'
'Promoters' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000558
genomeIntervals
'genomeIntervals' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'genomeIntervals' SubClassOf 'is published by' value 'Bioconductor'
'genomeIntervals' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'genomeIntervals' SubClassOf 'has specified data input' some ('has format specification' only
('GFF' and 'R data frame'))
'genomeIntervals' SubClassOf 'is encoded in' some 'R language'
'genomeIntervals' SubClassOf 'software'
'genomeIntervals' SubClassOf 'BioConductor Software'
'genomeIntervals' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000556
genemeta
'genemeta' SubClassOf 'is encoded in' some 'R language'
'genemeta' SubClassOf 'has specified data output' some 'Graph plot'
'genemeta' SubClassOf 'software'
'genemeta' SubClassOf 'has specified data input' some 'Gene expression data'
'genemeta' SubClassOf 'implements' some
(''FDR'' and ''t-test'' and ('Fixed effect model' or 'Random effects model'))
'genemeta' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000557
geneplotter
'geneplotter' SubClassOf 'has specified data input' some 'Gene expression dataset'
'geneplotter' SubClassOf 'software'
'geneplotter' SubClassOf 'is encoded in' some 'R language'
'geneplotter' SubClassOf 'has specified data output' some 'Graph plot'
'geneplotter' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000565
gpls
'gpls' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'gpls' SubClassOf 'is published by' value 'Bioconductor'
'gpls' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'gpls' SubClassOf 'is encoded in' some 'R language'
'gpls' SubClassOf 'software'
'gpls' SubClassOf 'implements' some 'Iteratively ReWeighted Least Squares'
'gpls' SubClassOf 'BioConductor Software'
'gpls' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000563
goProfiles
'goProfiles' SubClassOf 'is encoded in' some 'R language'
'goProfiles' SubClassOf 'implements' some 'Gene-Set Enrichment Analysis'
'goProfiles' SubClassOf 'has specified data output' some 'Image'
'goProfiles' SubClassOf 'has specified data input' some 'Gene list'
'goProfiles' SubClassOf 'is executed in' some
('data visualization' and 'descriptive statistical calculation' and 'differential expression analysis')
'goProfiles' SubClassOf 'software'
'goProfiles' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000564
goTools
'goTools' SubClassOf 'is executed in' some 'dataset comparison'
'goTools' SubClassOf 'is encoded in' some 'R language'
'goTools' SubClassOf 'software'
'goTools' SubClassOf 'is published by' value 'Bioconductor'
'goTools' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'goTools' SubClassOf 'has specified data input' some 'Gene list'
'goTools' SubClassOf 'R software'
'goTools' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000561
globaltest
'globaltest' SubClassOf 'implements' some 'globaltest'
'globaltest' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'globaltest' SubClassOf 'is encoded in' some 'R language'
'globaltest' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'globaltest' SubClassOf 'has specified data input' some 'Gene expression dataset'
'globaltest' SubClassOf 'software'
'globaltest' SubClassOf 'is published by' value 'Bioconductor'
'globaltest' SubClassOf 'R software'
'globaltest' SubClassOf 'BioConductor Software'
http://edamontology.org/format_3235
Cytoband format
'Cytoband format' SubClassOf 'is format of' some 'Cytoband position'
http://www.ebi.ac.uk/efo/swo/SWO_0000567
graph
'graph' SubClassOf 'implements' some 'R interface to boost graph library algorithm (RBGL)'
'graph' SubClassOf 'has specified data output' some 'Graph plot'
'graph' SubClassOf 'software'
'graph' SubClassOf 'is executed in' some
('distance calculation' and 'descriptive statistical calculation')
'graph' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'graph' SubClassOf 'is published by' value 'Bioconductor'
'graph' SubClassOf 'is encoded in' some 'R language'
'graph' SubClassOf 'R software'
'graph' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000577
hypergraph
'hypergraph' SubClassOf 'is published by' value 'Bioconductor'
'hypergraph' SubClassOf 'is encoded in' some 'R language'
'hypergraph' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'hypergraph' SubClassOf 'implements' some 'k-cores'
'hypergraph' SubClassOf 'has specified data output' some 'Graph plot'
'hypergraph' SubClassOf 'software'
'hypergraph' SubClassOf 'R software'
'hypergraph' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000574
hopach
'hopach' SubClassOf 'has specified data output' some
('Image' and 'Graph plot')
'hopach' SubClassOf 'implements' some 'Hierarchical Ordered Partitioning and Collapsing Hybrid (HOPACH) algorithm'
'hopach' SubClassOf 'is encoded in' some 'R language'
'hopach' SubClassOf 'is executed in' some
('distance calculation' and 'data visualization' and 'averaging' and 'decision tree induction' and 'differential expression analysis')
'hopach' SubClassOf 'software'
'hopach' SubClassOf 'has specified data input' some 'Gene expression data'
'hopach' SubClassOf 'R software'
http://edamontology.org/operation_3357
Format detection
'Format detection' SubClassOf 'has input' some 'data'
'Format detection' SubClassOf 'has output' some 'Format identifier'
http://www.ebi.ac.uk/efo/swo/SWO_0000575
HTML report
'HTML report' SubClassOf 'is encoded in' some 'HTML'
http://www.ebi.ac.uk/efo/swo/SWO_0000572
hexbin
'hexbin' SubClassOf 'implements' some 'Hexagon binning algorithm'
'hexbin' SubClassOf 'is executed in' some
('data visualization' and 'data normalization')
'hexbin' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'hexbin' SubClassOf 'software'
'hexbin' SubClassOf 'has specified data output' some 'Graph plot'
'hexbin' SubClassOf 'is encoded in' some 'R language'
'hexbin' SubClassOf 'is published by' value 'Bioconductor'
'hexbin' SubClassOf 'BioConductor Software'
'hexbin' SubClassOf 'R software'
http://edamontology.org/topic_2661
Toxins and targets
'Toxins and targets' SubClassOf 'Small molecules'
'Toxins and targets' SubClassOf 'Toxicology'
'Toxins and targets' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3351
Protein surface analysis
'Protein surface analysis' SubClassOf 'Protein property calculation (from structure)'
'Protein surface analysis' SubClassOf 'Structure analysis'
http://edamontology.org/operation_3353
Ontology comparison
'Ontology comparison' SubClassOf 'Comparison'
'Ontology comparison' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3261
RDF/XML
'RDF/XML' SubClassOf 'OWL format'
http://edamontology.org/topic_0003
Topic
'Topic' DisjointWith 'data format specification'
'Topic' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
'Topic' DisjointWith 'data'
'Topic' DisjointWith 'information processing'
http://www.ebi.ac.uk/efo/swo/SWO_0000578
Icens
'Icens' SubClassOf 'is encoded in' some 'R language'
'Icens' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'Icens' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'Icens' SubClassOf 'software'
'Icens' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000579
idiogram
'idiogram' SubClassOf 'is encoded in' some 'R language'
'idiogram' SubClassOf 'is published by' value 'Bioconductor'
'idiogram' SubClassOf 'has specified data output' some
('Image' and 'Graph plot')
'idiogram' SubClassOf 'software'
'idiogram' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'idiogram' SubClassOf 'BioConductor Software'
'idiogram' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000583
iterativeBMAsurv
'iterativeBMAsurv' SubClassOf 'is published by' value 'Bioconductor'
'iterativeBMAsurv' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'iterativeBMAsurv' SubClassOf 'implements' some 'Iterative Bayesian Model Averaging (BMA)'
'iterativeBMAsurv' SubClassOf 'has specified data output' some 'Graph plot'
'iterativeBMAsurv' SubClassOf 'software'
'iterativeBMAsurv' SubClassOf 'is encoded in' some 'R language'
'iterativeBMAsurv' SubClassOf 'BioConductor Software'
'iterativeBMAsurv' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000581
impute
'impute' SubClassOf 'software'
'impute' SubClassOf 'has specified data input' some 'Gene expression dataset'
'impute' SubClassOf 'implements' some 'k-nearest neighbour classification'
'impute' SubClassOf 'has specified data output' some 'Gene expression dataset'
'impute' SubClassOf 'is encoded in' some 'R language'
'impute' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000582
iterativeBMA
'iterativeBMA' SubClassOf 'has specified data output' some
('Image' and 'Graph plot')
'iterativeBMA' SubClassOf 'implements' some 'Iterative Bayesian Model Averaging (BMA)'
'iterativeBMA' SubClassOf 'software'
'iterativeBMA' SubClassOf 'is encoded in' some 'R language'
'iterativeBMA' SubClassOf 'has specified data input' some 'Gene expression dataset'
'iterativeBMA' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000476
arrayWoRx
'arrayWoRx' SubClassOf 'is published by' value 'Applied Precision Life Science'
http://www.ebi.ac.uk/efo/swo/SWO_0000473
arrayQuality
'arrayQuality' SubClassOf 'is encoded in' some 'R language'
'arrayQuality' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'arrayQuality' SubClassOf 'has specified data input' some
('Gene list' and 'Graph plot')
'arrayQuality' SubClassOf 'software'
'arrayQuality' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000474
arrayQualityMetrics
'arrayQualityMetrics' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'arrayQualityMetrics' SubClassOf 'is encoded in' some 'R language'
'arrayQualityMetrics' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'arrayQualityMetrics' SubClassOf 'is published by' value 'Bioconductor'
'arrayQualityMetrics' SubClassOf 'software'
'arrayQualityMetrics' SubClassOf 'R software'
'arrayQualityMetrics' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000471
aroma.light
'aroma.light' SubClassOf 'has specified data output' some 'Graph plot'
'aroma.light' SubClassOf 'is encoded in' some 'R language'
'aroma.light' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'aroma.light' SubClassOf 'is published by' value 'Bioconductor'
'aroma.light' SubClassOf 'software'
'aroma.light' SubClassOf 'is executed in' some
('averaging' and 'correction' and 'data normalization')
'aroma.light' SubClassOf 'BioConductor Software'
'aroma.light' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000472
arrayMvout
'arrayMvout' SubClassOf 'has specified data input' some 'MAQC data'
'arrayMvout' SubClassOf 'is encoded in' some 'R language'
'arrayMvout' SubClassOf 'software'
'arrayMvout' SubClassOf 'is published by' value 'Bioconductor'
'arrayMvout' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only
('R data frame' and 'PNG')))
'arrayMvout' SubClassOf 'BioConductor Software'
'arrayMvout' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000470
'apComplex'
''apComplex'' SubClassOf 'software'
''apComplex'' SubClassOf 'is encoded in' some 'R language'
''apComplex'' SubClassOf 'has specified data output' some 'Graph plot'
''apComplex'' SubClassOf 'implements' some 'PCMG'
''apComplex'' SubClassOf 'has specified data input' some 'AP-MS data'
''apComplex'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000479
'beadarray'
''beadarray'' SubClassOf 'has specified data input' some 'Text data set'
''beadarray'' SubClassOf 'is encoded in' some 'R language'
''beadarray'' SubClassOf 'software'
''beadarray'' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/algorithm/OntoDM_382176
predictive modeling algorithm
DisjointClasses: 'clustering algorithm', 'pattern discovery algorithm', 'predictive modeling algorithm'
http://www.ebi.ac.uk/efo/swo/SWO_0000488
'biocViews'
''biocViews'' SubClassOf 'has specified data output' some 'HTML report'
''biocViews'' SubClassOf 'software'
''biocViews'' SubClassOf 'is encoded in' some 'R language'
''biocViews'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000489
biomaRT
'biomaRT' SubClassOf 'has specified data input' some ('has format specification' only 'FASTA format')
'biomaRT' SubClassOf 'software'
'biomaRT' SubClassOf 'is published by' value 'Bioconductor'
'biomaRT' SubClassOf 'is encoded in' some 'R language'
'biomaRT' SubClassOf 'BioConductor Software'
'biomaRT' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000486
'biocDatasets'
''biocDatasets'' SubClassOf 'is encoded in' some 'R language'
''biocDatasets'' SubClassOf 'software'
''biocDatasets'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000487
'biocGraph'
''biocGraph'' SubClassOf 'software'
''biocGraph'' SubClassOf 'is encoded in' some 'R language'
''biocGraph'' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
''biocGraph'' SubClassOf 'has specified data input' some 'Graph plot'
''biocGraph'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000485
bioDist
'bioDist' SubClassOf 'implements' some
(''KLD'' and ''MI'')
'bioDist' SubClassOf 'is published by' value 'Bioconductor'
'bioDist' SubClassOf 'software'
'bioDist' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'bioDist' SubClassOf 'is encoded in' some 'R language'
'bioDist' SubClassOf 'is executed in' some 'distance calculation'
'bioDist' SubClassOf 'BioConductor Software'
'bioDist' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000482
bgafun
'bgafun' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'bgafun' SubClassOf 'is published by' value 'Bioconductor'
'bgafun' SubClassOf 'has specified data input' some ('has format specification' only 'FASTA format')
'bgafun' SubClassOf 'software'
'bgafun' SubClassOf 'is encoded in' some 'R language'
'bgafun' SubClassOf 'BioConductor Software'
'bgafun' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000483
bgx
'bgx' SubClassOf 'is encoded in' some 'R language'
'bgx' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'bgx' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'bgx' SubClassOf 'is published by' value 'Bioconductor'
'bgx' SubClassOf 'software'
'bgx' SubClassOf 'BioConductor Software'
'bgx' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000480
'beadarraySNP'
''beadarraySNP'' SubClassOf 'software'
''beadarraySNP'' SubClassOf 'is encoded in' some 'R language'
''beadarraySNP'' SubClassOf 'has specified data input' some 'Text data set'
''beadarraySNP'' SubClassOf 'has specified data output' some 'Graph plot'
''beadarraySNP'' SubClassOf 'is executed in' some 'data normalization'
''beadarraySNP'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000481
'betr'
''betr'' SubClassOf 'has specified data input' some 'Gene list'
''betr'' SubClassOf 'is published by' value 'Bioconductor'
''betr'' SubClassOf 'implements' some 'Bayesian Model'
''betr'' SubClassOf 'is encoded in' some 'R language'
''betr'' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
''betr'' SubClassOf 'is executed in' some 'differential expression analysis'
''betr'' SubClassOf 'software'
''betr'' SubClassOf 'R software'
''betr'' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000499
'clusterStab'
''clusterStab'' SubClassOf 'software'
''clusterStab'' SubClassOf 'is encoded in' some 'R language'
''clusterStab'' SubClassOf 'has specified data output' some
('Heatmap' and 'Graph plot')
''clusterStab'' SubClassOf 'implements' some 'Hierarchical clustering'
''clusterStab'' SubClassOf 'is executed in' some
('decision tree induction' and 'differential expression analysis')
''clusterStab'' SubClassOf 'has specified data input' some 'Gene list'
''clusterStab'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000495
'cellHTS2'
''cellHTS2'' SubClassOf 'has specified data input' some 'Text data set'
''cellHTS2'' SubClassOf 'is executed in' some
('data annotation' and 'data normalization' and 'descriptive statistical calculation')
''cellHTS2'' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
''cellHTS2'' SubClassOf 'is encoded in' some 'R language'
''cellHTS2'' SubClassOf 'software'
''cellHTS2'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000496
cghMCR
'cghMCR' SubClassOf 'implements' some 'MCR algorithm'
'cghMCR' SubClassOf 'is published by' value 'Bioconductor'
'cghMCR' SubClassOf 'software'
'cghMCR' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'cghMCR' SubClassOf 'is executed in' some 'data normalization'
'cghMCR' SubClassOf 'is encoded in' some 'R language'
'cghMCR' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'cghMCR' SubClassOf 'R software'
'cghMCR' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000494
'cellHTS'
''cellHTS'' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
''cellHTS'' SubClassOf 'is encoded in' some 'R language'
''cellHTS'' SubClassOf 'has specified data input' some 'Text data set'
''cellHTS'' SubClassOf 'software'
''cellHTS'' SubClassOf 'is executed in' some
('data normalization' and 'descriptive statistical calculation')
''cellHTS'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000491
'bridge'
''bridge'' SubClassOf 'software'
''bridge'' SubClassOf 'is executed in' some 'differential expression analysis'
''bridge'' SubClassOf 'is encoded in' some 'R language'
''bridge'' SubClassOf 'implements' some
('Bayesian Model' and 'Markov Chain Monte Carlo')
''bridge'' SubClassOf 'R software'
http://edamontology.org/operation_3283
Anonymisation
'Anonymisation' SubClassOf 'Utility operation'
'Anonymisation' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_3289
ID retrieval
'ID retrieval' SubClassOf 'has output' some 'Identifier'
http://edamontology.org/operation_3280
Named entity recognition
'Named entity recognition' SubClassOf 'Prediction and recognition'
http://edamontology.org/data_1713
Fate map
'Fate map' SubClassOf 'has topic' some 'Embryology'
http://edamontology.org/data_1717
MeSH
'MeSH' SubClassOf 'Obsolete concept (EDAM)'
'MeSH' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1716
GO
'GO' SubClassOf 'Obsolete concept (EDAM)'
'GO' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1715
BioPax term
'BioPax term' SubClassOf 'Obsolete concept (EDAM)'
'BioPax term' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1724
ChEBI
'ChEBI' SubClassOf 'Obsolete concept (EDAM)'
'ChEBI' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1723
EMAP
'EMAP' SubClassOf 'Obsolete concept (EDAM)'
'EMAP' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1722
FMA
'FMA' SubClassOf 'Obsolete concept (EDAM)'
'FMA' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1721
UMLS
'UMLS' SubClassOf 'Obsolete concept (EDAM)'
'UMLS' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1728
GO (molecular function)
'GO (molecular function)' SubClassOf 'Obsolete concept (EDAM)'
'GO (molecular function)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1727
GO (biological process)
'GO (biological process)' SubClassOf 'Obsolete concept (EDAM)'
'GO (biological process)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1726
myGrid
'myGrid' SubClassOf 'Obsolete concept (EDAM)'
'myGrid' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1725
MGED
'MGED' SubClassOf 'Obsolete concept (EDAM)'
'MGED' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1720
Plant ontology term
'Plant ontology term' SubClassOf 'Obsolete concept (EDAM)'
'Plant ontology term' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1719
NCBI taxonomy vocabulary
'NCBI taxonomy vocabulary' SubClassOf 'Obsolete concept (EDAM)'
'NCBI taxonomy vocabulary' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1718
HGNC
'HGNC' SubClassOf 'Obsolete concept (EDAM)'
'HGNC' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1733
Ontology concept reference
'Ontology concept reference' SubClassOf 'Obsolete concept (EDAM)'
'Ontology concept reference' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1732
Ontology concept comment
'Ontology concept comment' SubClassOf 'Obsolete concept (EDAM)'
'Ontology concept comment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1738
doc2loc document information
'doc2loc document information' SubClassOf 'Obsolete concept (EDAM)'
'doc2loc document information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1730
Ontology relation type
'Ontology relation type' SubClassOf 'Obsolete concept (EDAM)'
'Ontology relation type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1729
GO (cellular component)
'GO (cellular component)' SubClassOf 'Obsolete concept (EDAM)'
'GO (cellular component)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3032
Primer or probe design
'Primer or probe design' SubClassOf 'Obsolete concept (EDAM)'
'Primer or probe design' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3039
Nucleic acid structure
'Nucleic acid structure' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid structure' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3038
Structure databases
'Structure databases' SubClassOf 'Obsolete concept (EDAM)'
'Structure databases' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3044
Protein interaction networks
'Protein interaction networks' SubClassOf 'Obsolete concept (EDAM)'
'Protein interaction networks' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3043
Protein sequences
'Protein sequences' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequences' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3042
Nucleic acid sequences
'Nucleic acid sequences' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequences' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3041
Sequence databases
'Sequence databases' SubClassOf 'Obsolete concept (EDAM)'
'Sequence databases' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3048
Mammals
'Mammals' SubClassOf 'Obsolete concept (EDAM)'
'Mammals' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1431
Phylogenetic property values format
'Phylogenetic property values format' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic property values format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1767
CATH domain sequences (COMBS)
'CATH domain sequences (COMBS)' SubClassOf 'Obsolete concept (EDAM)'
'CATH domain sequences (COMBS)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1766
CATH domain sequences (ATOM)
'CATH domain sequences (ATOM)' SubClassOf 'Obsolete concept (EDAM)'
'CATH domain sequences (ATOM)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1765
CATH representative domain sequences (COMBS)
'CATH representative domain sequences (COMBS)' SubClassOf 'Obsolete concept (EDAM)'
'CATH representative domain sequences (COMBS)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3052
Sequence clusters and classification
'Sequence clusters and classification' SubClassOf 'Obsolete concept (EDAM)'
'Sequence clusters and classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1764
CATH representative domain sequences (ATOM)
'CATH representative domain sequences (ATOM)' SubClassOf 'Obsolete concept (EDAM)'
'CATH representative domain sequences (ATOM)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1762
CATH domain report
'CATH domain report' SubClassOf 'Obsolete concept (EDAM)'
'CATH domain report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1776
Protein report (function)
'Protein report (function)' SubClassOf 'Obsolete concept (EDAM)'
'Protein report (function)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3063
Medical informatics
'Medical informatics' SubClassOf 'Medicine'
'Medical informatics' SubClassOf 'Computer science'
'Medical informatics' SubClassOf 'Informatics'
http://edamontology.org/topic_3062
Genetic organisation
'Genetic organisation' SubClassOf 'Obsolete concept (EDAM)'
'Genetic organisation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3061
Documentation and help
'Documentation and help' SubClassOf 'Literature and reference'
'Documentation and help' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3060
Regulatory RNA
'Regulatory RNA' SubClassOf 'Obsolete concept (EDAM)'
'Regulatory RNA' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1772
Score
'Score' SubClassOf 'data'
'Score' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_1789
Gene name (TGD)
'Gene name (TGD)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (TGD)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1788
Gene name (SGD)
'Gene name (SGD)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (SGD)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3075
Biological system modelling
'Biological system modelling' SubClassOf 'Obsolete concept (EDAM)'
'Biological system modelling' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1787
Gene name (MaizeGDB)
'Gene name (MaizeGDB)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (MaizeGDB)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3074
Protein feature detection
'Protein feature detection' SubClassOf 'Obsolete concept (EDAM)'
'Protein feature detection' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3078
Genes and proteins resources
'Genes and proteins resources' SubClassOf 'Obsolete concept (EDAM)'
'Genes and proteins resources' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1786
Gene name (EcoGene primary)
'Gene name (EcoGene primary)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (EcoGene primary)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3073
Nucleic acid feature detection
'Nucleic acid feature detection' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid feature detection' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1785
Gene name (dictyBase)
'Gene name (dictyBase)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (dictyBase)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3072
Sequence feature detection
'Sequence feature detection' SubClassOf 'Obsolete concept (EDAM)'
'Sequence feature detection' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1784
Gene name (CGD)
'Gene name (CGD)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (CGD)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3071
Data management
'Data management' SubClassOf 'Topic'
'Data management' SubClassOf 'Informatics'
http://edamontology.org/data_1783
Gene name (ASPGD)
'Gene name (ASPGD)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (ASPGD)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0803
Human disease
'Human disease' SubClassOf 'Obsolete concept (EDAM)'
'Human disease' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1799
Gene ID (GeneDB Plasmodium falciparum)
'Gene ID (GeneDB Plasmodium falciparum)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (GeneDB Plasmodium falciparum)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1798
Gene ID (GeneDB Leishmania major)
'Gene ID (GeneDB Leishmania major)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (GeneDB Leishmania major)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1793
Gene name (Bacillus subtilis)
'Gene name (Bacillus subtilis)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (Bacillus subtilis)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1792
Gene name (MGD)
'Gene name (MGD)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (MGD)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1791
Gene name (HGNC)
'Gene name (HGNC)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (HGNC)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1790
Gene name (CGSC)
'Gene name (CGSC)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (CGSC)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1797
Gene ID (GeneDB Glossina morsitans)
'Gene ID (GeneDB Glossina morsitans)' SubClassOf 'Obsolete concept (EDAM)'
'Gene ID (GeneDB Glossina morsitans)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1447
Comparison matrix (floats)
'Comparison matrix (floats)' SubClassOf 'Obsolete concept (EDAM)'
'Comparison matrix (floats)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1446
Comparison matrix (integers)
'Comparison matrix (integers)' SubClassOf 'Obsolete concept (EDAM)'
'Comparison matrix (integers)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2521
Map data processing
'Map data processing' SubClassOf 'Obsolete concept (EDAM)'
'Map data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1441
Phylogenetic tree report (tree evaluation)
'Phylogenetic tree report (tree evaluation)' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic tree report (tree evaluation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1440
Phylogenetic tree report (tree shape)
'Phylogenetic tree report (tree shape)' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic tree report (tree shape)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2520
DNA mapping
'DNA mapping' SubClassOf 'has topic' some 'Mapping'
'DNA mapping' SubClassOf 'has output' some 'Map'
'DNA mapping' SubClassOf 'has topic' some 'Sequence assembly'
http://edamontology.org/data_1443
Phylogenetic tree report (tree stratigraphic)
'Phylogenetic tree report (tree stratigraphic)' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic tree report (tree stratigraphic)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2519
Structure processing (nucleic acid)
'Structure processing (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Structure processing (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1459
Nucleic acid structure
'Nucleic acid structure' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
http://edamontology.org/data_2788
Sequence profile data
'Sequence profile data' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profile data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1452
Amino acid comparison matrix (integers)
'Amino acid comparison matrix (integers)' SubClassOf 'Obsolete concept (EDAM)'
'Amino acid comparison matrix (integers)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1451
Nucleotide comparison matrix (floats)
'Nucleotide comparison matrix (floats)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleotide comparison matrix (floats)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1450
Nucleotide comparison matrix (integers)
'Nucleotide comparison matrix (integers)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleotide comparison matrix (integers)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1456
Protein features report (membrane regions)
'Protein features report (membrane regions)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (membrane regions)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1453
Amino acid comparison matrix (floats)
'Amino acid comparison matrix (floats)' SubClassOf 'Obsolete concept (EDAM)'
'Amino acid comparison matrix (floats)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2502
Protein analysis
'Protein analysis' SubClassOf 'Operation (typed)'
'Protein analysis' SubClassOf 'has topic' some 'Proteins'
'Protein analysis' SubClassOf 'Analysis'
http://edamontology.org/operation_2501
Nucleic acid analysis
'Nucleic acid analysis' SubClassOf 'has topic' some 'Nucleic acids'
'Nucleic acid analysis' SubClassOf 'Operation (typed)'
'Nucleic acid analysis' SubClassOf 'Analysis'
http://edamontology.org/data_1469
Protein structure (all atoms)
'Protein structure (all atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Protein structure (all atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2500
Microarray raw data analysis
'Microarray raw data analysis' SubClassOf 'Obsolete concept (EDAM)'
'Microarray raw data analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1468
Protein domain
'Protein domain' SubClassOf 'has topic' some 'Protein domains and folds'
http://edamontology.org/operation_2506
Protein sequence alignment analysis
'Protein sequence alignment analysis' SubClassOf 'has input' some 'Sequence alignment (protein)'
http://edamontology.org/operation_2505
Text processing
'Text processing' SubClassOf 'Obsolete concept (EDAM)'
'Text processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2504
Structural data processing
'Structural data processing' SubClassOf 'Obsolete concept (EDAM)'
'Structural data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2503
Sequence data processing
'Sequence data processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1463
Small molecule structure
'Small molecule structure' SubClassOf 'has topic' some 'Small molecules'
http://edamontology.org/data_1462
Carbohydrate structure
'Carbohydrate structure' SubClassOf 'has topic' some 'Lipids'
'Carbohydrate structure' SubClassOf 'has topic' some 'Carbohydrates'
http://edamontology.org/data_1460
Protein structure
'Protein structure' SubClassOf 'has topic' some 'Protein structure analysis'
http://edamontology.org/data_1465
RNA structure
'RNA structure' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
http://edamontology.org/topic_0724
Protein families
'Protein families' SubClassOf 'Proteins'
'Protein families' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0722
Nucleic acid classification
'Nucleic acid classification' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2512
Sequence editing (protein)
'Sequence editing (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence editing (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2511
Sequence editing (nucleic acid)
'Sequence editing (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence editing (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2510
DNA back-translation
'DNA back-translation' SubClassOf 'has topic' some 'Protein expression'
http://edamontology.org/operation_2516
Protein sequence visualisation
'Protein sequence visualisation' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence visualisation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2515
Nucleic acid sequence visualisation
'Nucleic acid sequence visualisation' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequence visualisation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1474
Protein domain (C-alpha atoms)
'Protein domain (C-alpha atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Protein domain (C-alpha atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1473
Protein domain (all atoms)
'Protein domain (all atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Protein domain (all atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1472
Protein chain (C-alpha atoms)
'Protein chain (C-alpha atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Protein chain (C-alpha atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1471
Protein chain (all atoms)
'Protein chain (all atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Protein chain (all atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2243
phylip property values
'phylip property values' SubClassOf 'Obsolete concept (EDAM)'
'phylip property values' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2507
Nucleic acid sequence alignment analysis
'Nucleic acid sequence alignment analysis' SubClassOf 'has input' some 'Sequence alignment (nucleic acid)'
http://edamontology.org/data_1485
Structure alignment (protein all atoms)
'Structure alignment (protein all atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment (protein all atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1484
Multiple protein tertiary structure alignment
'Multiple protein tertiary structure alignment' SubClassOf 'Obsolete concept (EDAM)'
'Multiple protein tertiary structure alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1483
Structure alignment (protein pair)
'Structure alignment (protein pair)' SubClassOf 'Structure alignment (pair)'
'Structure alignment (protein pair)' SubClassOf 'Structure alignment (protein)'
'Structure alignment (protein pair)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1489
Multiple protein tertiary structure alignment (all atoms)
'Multiple protein tertiary structure alignment (all atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Multiple protein tertiary structure alignment (all atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1488
Pairwise protein tertiary structure alignment (C-alpha atoms)
'Pairwise protein tertiary structure alignment (C-alpha atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Pairwise protein tertiary structure alignment (C-alpha atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1487
Pairwise protein tertiary structure alignment (all atoms)
'Pairwise protein tertiary structure alignment (all atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Pairwise protein tertiary structure alignment (all atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1486
Structure alignment (protein C-alpha atoms)
'Structure alignment (protein C-alpha atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment (protein C-alpha atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0749
Transcription factors and regulatory sites
'Transcription factors and regulatory sites' SubClassOf 'Promoters'
'Transcription factors and regulatory sites' SubClassOf 'Protein families'
'Transcription factors and regulatory sites' SubClassOf 'Proteins'
'Transcription factors and regulatory sites' SubClassOf 'Gene expression'
http://edamontology.org/topic_0747
Nucleic acid sites and features
'Nucleic acid sites and features' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sites and features' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0748
Protein sites and features
'Protein sites and features' SubClassOf 'Obsolete concept (EDAM)'
'Protein sites and features' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1480
Structure alignment (multiple)
'Structure alignment (multiple)' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment (multiple)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0741
Protein sequence alignment
'Protein sequence alignment' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0740
Nucleic acid sequence alignment
'Nucleic acid sequence alignment' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequence alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1496
Molecular similarity score
'Molecular similarity score' SubClassOf 'Obsolete concept (EDAM)'
'Molecular similarity score' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1495
DaliLite hit table
'DaliLite hit table' SubClassOf 'Obsolete concept (EDAM)'
'DaliLite hit table' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2575
Protein binding site prediction
'Protein binding site prediction' SubClassOf 'has topic' some 'Protein interactions'
'Protein binding site prediction' SubClassOf 'Protein feature detection'
http://edamontology.org/operation_2574
Protein hydropathy calculation
'Protein hydropathy calculation' SubClassOf 'has topic' some 'Protein properties'
'Protein hydropathy calculation' SubClassOf 'has output' some 'Protein hydropathy data'
http://edamontology.org/data_1492
Multiple nucleic acid tertiary structure alignment
'Multiple nucleic acid tertiary structure alignment' SubClassOf 'Obsolete concept (EDAM)'
'Multiple nucleic acid tertiary structure alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1491
Structure alignment (nucleic acid pair)
'Structure alignment (nucleic acid pair)' SubClassOf 'Structure alignment (pair)'
'Structure alignment (nucleic acid pair)' SubClassOf 'Structure alignment (nucleic acid)'
'Structure alignment (nucleic acid pair)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1490
Multiple protein tertiary structure alignment (C-alpha atoms)
'Multiple protein tertiary structure alignment (C-alpha atoms)' SubClassOf 'Obsolete concept (EDAM)'
'Multiple protein tertiary structure alignment (C-alpha atoms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0753
Metabolic pathways
'Metabolic pathways' SubClassOf 'Molecular interactions, pathways and networks'
'Metabolic pathways' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0751
Phosphorylation sites
'Phosphorylation sites' SubClassOf 'Obsolete concept (EDAM)'
'Phosphorylation sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0754
Signaling pathways
'Signaling pathways' SubClassOf 'Molecular interactions, pathways and networks'
'Signaling pathways' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2210
Strain data format
'Strain data format' SubClassOf 'Obsolete concept (EDAM)'
'Strain data format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0769
Workflows
'Workflows' SubClassOf 'Obsolete concept (EDAM)'
'Workflows' SubClassOf 'Data management'
http://edamontology.org/format_2211
CIP strain data format
'CIP strain data format' SubClassOf 'Obsolete concept (EDAM)'
'CIP strain data format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0767
Protein and peptide identification
'Protein and peptide identification' SubClassOf 'Obsolete concept (EDAM)'
'Protein and peptide identification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0770
Data types and objects
'Data types and objects' SubClassOf 'Obsolete concept (EDAM)'
'Data types and objects' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0771
Theoretical biology
'Theoretical biology' SubClassOf 'Obsolete concept (EDAM)'
'Theoretical biology' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2203
Sequence record lite format
'Sequence record lite format' SubClassOf 'Obsolete concept (EDAM)'
'Sequence record lite format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2202
Sequence record full format
'Sequence record full format' SubClassOf 'Obsolete concept (EDAM)'
'Sequence record full format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0779
Mitochondria
'Mitochondria' SubClassOf 'Obsolete concept (EDAM)'
'Mitochondria' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0786
Arabidopsis
'Arabidopsis' SubClassOf 'Obsolete concept (EDAM)'
'Arabidopsis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0787
Rice
'Rice' SubClassOf 'Obsolete concept (EDAM)'
'Rice' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://kt.ijs.si/panovp/OntoDM#OntoDM_731692
single generalization algorithm
'ensemble algorithm' DisjointWith 'single generalization algorithm'
http://edamontology.org/data_3231
GWAS report
'GWAS report' SubClassOf 'Obsolete concept (EDAM)'
'GWAS report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0796
Genetic mapping and linkage
'Genetic mapping and linkage' SubClassOf 'Obsolete concept (EDAM)'
'Genetic mapping and linkage' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000405
ArrayExpress Bioconductor
'ArrayExpress Bioconductor' SubClassOf 'is encoded in' some 'R language'
'ArrayExpress Bioconductor' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'MAGE-TAB'))
'ArrayExpress Bioconductor' SubClassOf 'output of' some
('software development process' and ('has participant' value 'European Bioinformatics Institute'))
'ArrayExpress Bioconductor' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Bioconductor'))
'ArrayExpress Bioconductor' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'R data frame'))
'ArrayExpress Bioconductor' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'European Bioinformatics Institute'))
'ArrayExpress Bioconductor' SubClassOf 'software'
'ArrayExpress Bioconductor' SubClassOf 'R software'
'ArrayExpress Bioconductor' SubClassOf 'MAGE-TAB inputting software'
http://edamontology.org/topic_0798
Mobile genetic elements
'Mobile genetic elements' SubClassOf 'Genetics'
'Mobile genetic elements' SubClassOf 'Nucleic acid sites, features and motifs'
'Mobile genetic elements' SubClassOf 'Gene structure'
http://www.ebi.ac.uk/efo/swo/SWO_0000417
ScanAlyze
'ScanAlyze' SubClassOf 'is developed by' value 'obsolete_Stanford University'
http://www.ebi.ac.uk/efo/swo/SWO_0000418
ScanArray
'ScanArray' SubClassOf 'is developed by' value 'PerkinElmer'
http://www.ebi.ac.uk/efo/swo/SWO_0000416
ScISI
'ScISI' SubClassOf 'is encoded in' some 'R language'
'ScISI' SubClassOf 'is published by' value 'Bioconductor'
'ScISI' SubClassOf 'has specified data output' some
('HTML report' and 'Graph plot')
'ScISI' SubClassOf 'software'
'ScISI' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'ScISI' SubClassOf 'is executed in' some
('data annotation' and 'descriptive statistical calculation')
'ScISI' SubClassOf 'R software'
'ScISI' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000422
ShortRead
'ShortRead' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'ShortRead' SubClassOf 'has specified data input' some 'Text data set'
'ShortRead' SubClassOf 'is published by' value 'Bioconductor'
'ShortRead' SubClassOf 'software'
'ShortRead' SubClassOf 'is encoded in' some 'R language'
'ShortRead' SubClassOf 'R software'
'ShortRead' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000421
Scanning software G2565AA version A6.3.1
'Scanning software G2565AA version A6.3.1' SubClassOf 'is developed by' value 'Agilent Technologies'
http://www.ebi.ac.uk/efo/swo/SWO_0000429
Spotfinder [TIGR]
'Spotfinder [TIGR]' SubClassOf 'is developed by' value 'Dana-Farber Cancer Institute and Harvard School of Public Health'
'Spotfinder [TIGR]' SubClassOf 'is developed by' value 'J. Craig Venter Institute'
http://www.ebi.ac.uk/efo/swo/SWO_0000424
Silicon Genetics Genespring
'Silicon Genetics Genespring' SubClassOf 'is developed by' value 'Agilent Technologies'
http://www.ebi.ac.uk/efo/swo/SWO_0000432
TAS Software
'TAS Software' SubClassOf 'software'
'TAS Software' SubClassOf 'is published by' value 'Affymetrix'
'TAS Software' SubClassOf 'Affymetrix Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000430
Spotfire
'Spotfire' SubClassOf 'is developed by' value 'TIBCO Software Inc'
http://edamontology.org/data_3268
Sequence feature type
'Sequence feature type' SubClassOf 'Obsolete concept (EDAM)'
'Sequence feature type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3269
Gene homology (report)
'Gene homology (report)' SubClassOf 'Obsolete concept (EDAM)'
'Gene homology (report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000438
TypeInfo
'TypeInfo' SubClassOf 'software'
'TypeInfo' SubClassOf 'has specified data input' some
('Gene expression dataset' or ('has format specification' only 'R data frame'))
'TypeInfo' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' only 'R data frame'))
'TypeInfo' SubClassOf 'is published by' value 'Bioconductor'
'TypeInfo' SubClassOf 'is encoded in' some 'R language'
'TypeInfo' SubClassOf 'BioConductor Software'
'TypeInfo' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000435
TargetSearch
'TargetSearch' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot' and ('has format specification' only 'pdf'))
'TargetSearch' SubClassOf 'is encoded in' some 'R language'
'TargetSearch' SubClassOf 'has specified data input' some 'Text data set'
'TargetSearch' SubClassOf 'software'
'TargetSearch' SubClassOf 'implements' some
('Library Search Algorithm' and 'PPC algorithm')
'TargetSearch' SubClassOf 'is published by' value 'Bioconductor'
'TargetSearch' SubClassOf 'R software'
'TargetSearch' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000442
VanillaICE
'VanillaICE' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'VanillaICE' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'VanillaICE' SubClassOf 'implements' some 'Hidden Markov Model'
'VanillaICE' SubClassOf 'is published by' value 'Bioconductor'
'VanillaICE' SubClassOf 'is encoded in' some 'R language'
'VanillaICE' SubClassOf 'software'
'VanillaICE' SubClassOf 'BioConductor Software'
'VanillaICE' SubClassOf 'R software'
http://edamontology.org/data_3273
Sample ID
'Sample ID' SubClassOf 'is identifier of' some 'Sample annotation'
http://www.ebi.ac.uk/efo/swo/SWO_0000446
XDE
'XDE' SubClassOf 'is encoded in' some 'R language'
'XDE' SubClassOf 'is published by' value 'Bioconductor'
'XDE' SubClassOf 'implements' some
('Bayesian Model' and 'Markov Chain Monte Carlo')
'XDE' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'XDE' SubClassOf 'has specified data input' some 'Gene expression dataset'
'XDE' SubClassOf 'software'
'XDE' SubClassOf 'is executed in' some
('cross validation' and 'differential expression analysis')
'XDE' SubClassOf 'R software'
'XDE' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000447
XDotsReader
'XDotsReader' SubClassOf 'is developed by' value 'COSE, France'
http://www.ebi.ac.uk/efo/swo/SWO_0000455
'affyPLM'
''affyPLM'' SubClassOf 'is executed in' some
('correction' and 'data normalization')
''affyPLM'' SubClassOf 'implements' some
(''PLM'' and 'RMA' and 'M-estimation regression')
''affyPLM'' SubClassOf 'is encoded in' some 'R language'
''affyPLM'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
''affyPLM'' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
http://www.ebi.ac.uk/efo/swo/SWO_0000456
affyPara
'affyPara' SubClassOf 'is encoded in' some 'R language'
'affyPara' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'affyPara' SubClassOf 'is published by' value 'Bioconductor'
'affyPara' SubClassOf 'software'
'affyPara' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
'affyPara' SubClassOf 'is executed in' some
('averaging' and 'correction' and 'data normalization')
'affyPara' SubClassOf 'BioConductor Software'
'affyPara' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000453
affyContam
'affyContam' SubClassOf 'has specified data input' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'affyContam' SubClassOf 'software'
'affyContam' SubClassOf 'is published by' value 'Bioconductor'
'affyContam' SubClassOf 'is encoded in' some 'R language'
'affyContam' SubClassOf 'has specified data output' some ('has format specification' only
('CEL binary format' or 'CEL ASCII format'))
'affyContam' SubClassOf 'R software'
'affyContam' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000454
affyImGUI
'affyImGUI' SubClassOf 'software'
'affyImGUI' SubClassOf 'implements' some
(''PLM'' or 'RMA')
'affyImGUI' SubClassOf 'is encoded in' some 'R language'
'affyImGUI' SubClassOf 'is published by' value 'Bioconductor'
'affyImGUI' SubClassOf 'BioConductor Software'
'affyImGUI' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000451
Acuity
'Acuity' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Molecular Devices'))
http://www.ebi.ac.uk/efo/swo/SWO_0000452
affxparser
'affxparser' SubClassOf 'is encoded in' some 'R language'
'affxparser' SubClassOf 'has specified data input' only 'Affymetrix-compliant data'
'affxparser' SubClassOf 'has specified data input' some 'Affymetrix-compliant data'
'affxparser' SubClassOf 'software'
'affxparser' SubClassOf 'has specified data output' some 'Text data set'
'affxparser' SubClassOf 'is executed in' some 'parse'
'affxparser' SubClassOf 'is published by' value 'Bioconductor'
'affxparser' SubClassOf 'R software'
'affxparser' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000450
Array Comparative Genomic Hybridization
'Array Comparative Genomic Hybridization' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'Array Comparative Genomic Hybridization' SubClassOf 'is encoded in' some 'R language'
'Array Comparative Genomic Hybridization' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'sproc'))
'Array Comparative Genomic Hybridization' SubClassOf 'implements' some ''FDR''
'Array Comparative Genomic Hybridization' SubClassOf 'has specified data input' some
('CSV data set' and ('has format specification' some 'Textual format'))
'Array Comparative Genomic Hybridization' SubClassOf 'implements' some 'Hidden Markov Model'
'Array Comparative Genomic Hybridization' SubClassOf 'implements' some ''t-test''
'Array Comparative Genomic Hybridization' SubClassOf 'software'
'Array Comparative Genomic Hybridization' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000459
'affycoretools'
''affycoretools'' SubClassOf 'has specified data output' some
('Text data set' and 'HTML report' and 'Graph plot')
''affycoretools'' SubClassOf 'is encoded in' some 'R language'
''affycoretools'' SubClassOf 'has specified data input' some
('Text data set' or 'Rnw')
''affycoretools'' SubClassOf 'is executed in' some 'differential expression analysis'
''affycoretools'' SubClassOf 'software'
''affycoretools'' SubClassOf 'implements' some
(''FDR'' and 'RMA')
''affycoretools'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000457
affyQCReport
'affyQCReport' SubClassOf 'is published by' value 'Bioconductor'
'affyQCReport' SubClassOf 'is executed in' some 'differential expression analysis'
'affyQCReport' SubClassOf 'is encoded in' some 'R language'
'affyQCReport' SubClassOf 'has specified data input' some ('has format specification' some
('CEL binary format' or 'CEL ASCII format'))
'affyQCReport' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'pdf'))
'affyQCReport' SubClassOf 'software'
'affyQCReport' SubClassOf 'R software'
'affyQCReport' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000458
affyTiling
'affyTiling' SubClassOf 'has specified data output' some 'CSV data set'
'affyTiling' SubClassOf 'is published by' value 'Bioconductor'
'affyTiling' SubClassOf 'is executed in' some
('correction' and 'data normalization')
'affyTiling' SubClassOf 'implements' some 'RMA'
'affyTiling' SubClassOf 'has specified data input' some ('has format specification' only
('BPMAP' and 'CEL binary format'))
'affyTiling' SubClassOf 'software'
'affyTiling' SubClassOf 'is encoded in' some 'R language'
'affyTiling' SubClassOf 'R software'
'affyTiling' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000466
'annotate'
''annotate'' SubClassOf 'has specified data output' some 'HTML report'
''annotate'' SubClassOf 'software'
''annotate'' SubClassOf 'has specified data input' some 'CSV data set'
''annotate'' SubClassOf 'is encoded in' some 'R language'
''annotate'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000465
annaffy
'annaffy' SubClassOf 'is published by' value 'Bioconductor'
'annaffy' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'annaffy' SubClassOf 'is encoded in' some 'R language'
'annaffy' SubClassOf 'software'
'annaffy' SubClassOf 'has specified data output' some 'HTML report'
'annaffy' SubClassOf 'R software'
'annaffy' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000463
altcdfenvs
'altcdfenvs' SubClassOf 'is encoded in' some 'R language'
'altcdfenvs' SubClassOf 'is published by' value 'Bioconductor'
'altcdfenvs' SubClassOf 'has specified data input' some ('has format specification' only 'FASTA format')
'altcdfenvs' SubClassOf 'software'
'altcdfenvs' SubClassOf 'has specified data output' some 'Graph plot'
'altcdfenvs' SubClassOf 'BioConductor Software'
'altcdfenvs' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000460
affyio
'affyio' SubClassOf 'is encoded in' some 'R language'
'affyio' SubClassOf 'is published by' value 'Bioconductor'
'affyio' SubClassOf 'is executed in' some 'parse'
'affyio' SubClassOf 'has specified data input' some ('has format specification' only
('CDF binary format' or 'CEL binary format' or 'CDF ASCII format' or 'CEL ASCII format'))
'affyio' SubClassOf 'has specified data output' some ('has format specification' only
('CDF binary format' or 'CEL binary format' or 'CDF ASCII format' or 'CEL ASCII format'))
'affyio' SubClassOf 'software'
'affyio' SubClassOf 'R software'
'affyio' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000461
affypdnn
'affypdnn' SubClassOf 'has specified data output' some 'Graph plot'
'affypdnn' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'R data frame'))
'affypdnn' SubClassOf 'software'
'affypdnn' SubClassOf 'is published by' value 'Bioconductor'
'affypdnn' SubClassOf 'is encoded in' some 'R language'
'affypdnn' SubClassOf 'R software'
'affypdnn' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000468
annotationTools
'annotationTools' SubClassOf 'is encoded in' some 'R language'
'annotationTools' SubClassOf 'is published by' value 'Bioconductor'
'annotationTools' SubClassOf 'is executed in' some
('data annotation' and 'gene expression analysis')
'annotationTools' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'annotationTools' SubClassOf 'software'
'annotationTools' SubClassOf 'has specified data input' some 'CSV data set'
'annotationTools' SubClassOf 'R software'
'annotationTools' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000356
RefPlus
'RefPlus' SubClassOf 'is executed in' some
('background correction' and 'data normalization' and 'differential expression analysis')
'RefPlus' SubClassOf 'software'
'RefPlus' SubClassOf 'has specified data output' some 'Graph plot'
'RefPlus' SubClassOf 'has specified data input' some 'Gene expression dataset'
'RefPlus' SubClassOf 'is encoded in' some 'R language'
'RefPlus' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000354
RdbiPgSQL
'RdbiPgSQL' SubClassOf 'has specified data output' some 'Graph plot'
'RdbiPgSQL' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'RdbiPgSQL' SubClassOf 'is encoded in' some 'R language'
'RdbiPgSQL' SubClassOf 'software'
'RdbiPgSQL' SubClassOf 'is published by' value 'Bioconductor'
'RdbiPgSQL' SubClassOf 'BioConductor Software'
'RdbiPgSQL' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000355
Rdisop
'Rdisop' SubClassOf 'is published by' value 'Bioconductor'
'Rdisop' SubClassOf 'software'
'Rdisop' SubClassOf 'is encoded in' some 'R language'
'Rdisop' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'Rdisop' SubClassOf 'has specified data output' some 'Graph plot'
'Rdisop' SubClassOf 'BioConductor Software'
'Rdisop' SubClassOf 'R software'
http://edamontology.org/data_0914
Codon usage data
'Codon usage data' SubClassOf 'data'
'Codon usage data' SubClassOf 'has topic' some 'Gene expression'
'Codon usage data' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/efo/swo/SWO_0000352
RbcBook1
'RbcBook1' SubClassOf 'is encoded in' some 'R language'
'RbcBook1' SubClassOf 'software'
'RbcBook1' SubClassOf 'R software'
http://edamontology.org/format_1704
MSDchem ligand dictionary entry format
'MSDchem ligand dictionary entry format' SubClassOf 'Obsolete concept (EDAM)'
'MSDchem ligand dictionary entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000353
Rdbi
'Rdbi' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'Rdbi' SubClassOf 'is published by' value 'Bioconductor'
'Rdbi' SubClassOf 'software'
'Rdbi' SubClassOf 'has specified data output' some 'Graph plot'
'Rdbi' SubClassOf 'is encoded in' some 'R language'
'Rdbi' SubClassOf 'BioConductor Software'
'Rdbi' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000350
RankProd
'RankProd' SubClassOf 'implements' some 'Rank product non-parametric method'
'RankProd' SubClassOf 'software'
'RankProd' SubClassOf 'is published by' value 'Bioconductor'
'RankProd' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'RankProd' SubClassOf 'has specified data input' some 'Gene expression dataset'
'RankProd' SubClassOf 'is executed in' some 'differential expression analysis'
'RankProd' SubClassOf 'is encoded in' some 'R language'
'RankProd' SubClassOf 'BioConductor Software'
'RankProd' SubClassOf 'R software'
http://edamontology.org/data_0911
Nucleotide base annotation
'Nucleotide base annotation' SubClassOf 'Obsolete concept (EDAM)'
'Nucleotide base annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1706
KEGG DRUG entry format
'KEGG DRUG entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG DRUG entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0907
Protein family report
'Protein family report' SubClassOf 'has topic' some 'Protein families'
http://edamontology.org/format_1701
PubChem entry format
'PubChem entry format' SubClassOf 'Obsolete concept (EDAM)'
'PubChem entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0906
Protein interaction report
'Protein interaction report' SubClassOf 'has topic' some 'Protein interactions'
'Protein interaction report' SubClassOf 'Protein report'
'Protein interaction report' SubClassOf 'Protein structure report'
http://edamontology.org/format_1700
KEGG GLYCAN entry format
'KEGG GLYCAN entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG GLYCAN entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1703
ChEBI entry format
'ChEBI entry format' SubClassOf 'Obsolete concept (EDAM)'
'ChEBI entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0904
Protein features (mutation)
'Protein features (mutation)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features (mutation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1702
ChemSpider entry format
'ChemSpider entry format' SubClassOf 'Obsolete concept (EDAM)'
'ChemSpider entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000358
Resourcerer
'Resourcerer' SubClassOf 'has specified data output' some 'Text data set'
'Resourcerer' SubClassOf 'software'
'Resourcerer' SubClassOf 'has specified data input' some 'Annotation data packages'
'Resourcerer' SubClassOf 'is encoded in' some 'R language'
'Resourcerer' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000359
Rgraphviz
'Rgraphviz' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'Rgraphviz' SubClassOf 'is encoded in' some 'R language'
'Rgraphviz' SubClassOf 'is published by' value 'Bioconductor'
'Rgraphviz' SubClassOf 'has specified data output' some 'Graph plot'
'Rgraphviz' SubClassOf 'software'
'Rgraphviz' SubClassOf 'R software'
'Rgraphviz' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000367
RpsiXML
'RpsiXML' SubClassOf 'software'
'RpsiXML' SubClassOf 'is published by' value 'Bioconductor'
'RpsiXML' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'RpsiXML' SubClassOf 'has specified data input' some ('has format specification' only 'XML')
'RpsiXML' SubClassOf 'is executed in' some 'parse'
'RpsiXML' SubClassOf 'is encoded in' some 'R language'
'RpsiXML' SubClassOf 'R software'
'RpsiXML' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000368
Rredland
'Rredland' SubClassOf 'is encoded in' some 'R language'
'Rredland' SubClassOf 'software'
'Rredland' SubClassOf 'is published by' value 'Bioconductor'
'Rredland' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'Rredland' SubClassOf 'has specified data input' some 'Text data set'
'Rredland' SubClassOf 'BioConductor Software'
'Rredland' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000365
Rosetta Resolver
'Rosetta Resolver' SubClassOf 'is developed by' value 'Rosetta Biosoftware'
http://edamontology.org/data_0923
PCR experiment report
'PCR experiment report' SubClassOf 'Obsolete concept (EDAM)'
'PCR experiment report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000361
Rintact
'Rintact' SubClassOf 'has specified data input' some ('has format specification' only 'XML')
'Rintact' SubClassOf 'is executed in' some 'parse'
'Rintact' SubClassOf 'is published by' value 'Bioconductor'
'Rintact' SubClassOf 'software'
'Rintact' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'Rintact' SubClassOf 'is encoded in' some 'R language'
'Rintact' SubClassOf 'BioConductor Software'
'Rintact' SubClassOf 'R software'
http://edamontology.org/data_0922
Nucleic acid features report (primers)
'Nucleic acid features report (primers)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (primers)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000362
Rmagpie
'Rmagpie' SubClassOf 'is executed in' some 'cross validation'
'Rmagpie' SubClassOf 'software'
'Rmagpie' SubClassOf 'has specified data input' some 'Gene expression dataset'
'Rmagpie' SubClassOf 'has specified data output' some 'Text data set'
'Rmagpie' SubClassOf 'implements' some 'Recursive Feature Elimination (RFE)'
'Rmagpie' SubClassOf 'is encoded in' some 'R language'
'Rmagpie' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000360
Ringo
'Ringo' SubClassOf 'has specified data input' some 'Text data set'
'Ringo' SubClassOf 'is specified data input of' exactly 2 'Text data set'
'Ringo' SubClassOf 'is encoded in' some 'R language'
'Ringo' SubClassOf 'software'
'Ringo' SubClassOf 'is executed in' some
('data visualization' and 'data normalization')
'Ringo' SubClassOf 'is published by' value 'Bioconductor'
'Ringo' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'GFF'))
'Ringo' SubClassOf 'R software'
'Ringo' SubClassOf 'BioConductor Software'
'Ringo' SubClassOf 'data'
http://edamontology.org/data_0918
DNA variation
'DNA variation' SubClassOf 'Obsolete concept (EDAM)'
'DNA variation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0917
Gene classification
'Gene classification' SubClassOf 'Obsolete concept (EDAM)'
'Gene classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000369
Rtreemix
'Rtreemix' SubClassOf 'implements' some
('Likelihood method' or 'Sim method')
'Rtreemix' SubClassOf 'is encoded in' some 'R language'
'Rtreemix' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'Rtreemix' SubClassOf 'is executed in' some 'decision tree induction'
'Rtreemix' SubClassOf 'has specified data input' some 'Text data set'
'Rtreemix' SubClassOf 'software'
'Rtreemix' SubClassOf 'is published by' value 'Bioconductor'
'Rtreemix' SubClassOf 'BioConductor Software'
'Rtreemix' SubClassOf 'R software'
http://edamontology.org/data_0919
Chromosome report
'Chromosome report' SubClassOf 'has topic' some 'Chromosomes'
http://edamontology.org/data_0932
Oligonucleotide probe data
'Oligonucleotide probe data' SubClassOf 'Obsolete concept (EDAM)'
'Oligonucleotide probe data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0931
Microarray experiment report
'Microarray experiment report' SubClassOf 'Obsolete concept (EDAM)'
'Microarray experiment report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000377
SBMLR
'SBMLR' SubClassOf 'is encoded in' some 'R language'
'SBMLR' SubClassOf 'has specified data input' some ('has format specification' only
('SBML' or 'SBMLR format'))
'SBMLR' SubClassOf 'has specified data output' some ('has format specification' only
('SBML' or 'SBMLR format'))
'SBMLR' SubClassOf 'is published by' value 'Bioconductor'
'SBMLR' SubClassOf 'software'
'SBMLR' SubClassOf 'BioConductor Software'
'SBMLR' SubClassOf 'R software'
http://edamontology.org/data_0936
Sequence tag profile (with gene assignment)
'Sequence tag profile (with gene assignment)' SubClassOf 'Sequence tag profile'
'Sequence tag profile (with gene assignment)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0935
SBS experimental data
'SBS experimental data' SubClassOf 'Obsolete concept (EDAM)'
'SBS experimental data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000375
SAS/STAT Software, Version 8
'SAS/STAT Software, Version 8' SubClassOf 'is developed by' value 'SAS Institute Inc.'
http://edamontology.org/data_0934
MPSS experimental data
'MPSS experimental data' SubClassOf 'Obsolete concept (EDAM)'
'MPSS experimental data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0933
SAGE experimental data
'SAGE experimental data' SubClassOf 'Obsolete concept (EDAM)'
'SAGE experimental data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000373
SAGx
'SAGx' SubClassOf 'is encoded in' some 'R language'
'SAGx' SubClassOf 'is published by' value 'Bioconductor'
'SAGx' SubClassOf 'software'
'SAGx' SubClassOf 'implements' some
('Linear modelling' and ''t-test'')
'SAGx' SubClassOf 'has specified data input' some
('Graph plot' and ('has format specification' only 'R data frame'))
'SAGx' SubClassOf 'BioConductor Software'
'SAGx' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000370
Ruuid
'Ruuid' SubClassOf 'software'
'Ruuid' SubClassOf 'is published by' value 'Bioconductor'
'Ruuid' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'Ruuid' SubClassOf 'has specified data input' some 'Text data set'
'Ruuid' SubClassOf 'is encoded in' some 'R language'
'Ruuid' SubClassOf 'implements' some 'Theodore Ts’o’s'
'Ruuid' SubClassOf 'R software'
'Ruuid' SubClassOf 'BioConductor Software'
http://edamontology.org/data_0943
Mass spectrometry spectra
'Mass spectrometry spectra' SubClassOf 'has topic' some 'Proteomics'
http://edamontology.org/data_0942
2D PAGE image
'2D PAGE image' SubClassOf 'has topic' some 'Proteomics'
http://edamontology.org/data_0941
Electron microscopy model
'Electron microscopy model' SubClassOf 'has topic' some 'Structural biology'
http://www.ebi.ac.uk/efo/swo/SWO_0000387
SNPchip
'SNPchip' SubClassOf 'is published by' value 'Bioconductor'
'SNPchip' SubClassOf 'is encoded in' some 'R language'
'SNPchip' SubClassOf 'software'
'SNPchip' SubClassOf 'implements' some
('data annotation' and 'data visualization' and 'descriptive statistical calculation')
'SNPchip' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'SNPchip' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'SNPchip' SubClassOf 'implements' some 'Hidden Markov Model'
'SNPchip' SubClassOf 'R software'
'SNPchip' SubClassOf 'BioConductor Software'
http://edamontology.org/data_0940
Electron microscopy volume map
'Electron microscopy volume map' SubClassOf 'has topic' some 'Structural biology'
http://www.ebi.ac.uk/efo/swo/SWO_0000388
SPIA
'SPIA' SubClassOf 'is encoded in' some 'R language'
'SPIA' SubClassOf 'is published by' value 'Bioconductor'
'SPIA' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'SPIA' SubClassOf 'is executed in' some
('descriptive statistical calculation' and 'differential expression analysis')
'SPIA' SubClassOf 'has specified data input' some 'Gene expression dataset'
'SPIA' SubClassOf 'implements' some 'Signaling Pathway Impact Analysis (SPIA) algorithm'
'SPIA' SubClassOf 'software'
'SPIA' SubClassOf 'R software'
'SPIA' SubClassOf 'BioConductor Software'
http://edamontology.org/data_0947
Biological pathway map
'Biological pathway map' SubClassOf 'Obsolete concept (EDAM)'
'Biological pathway map' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000385
SMAP
'SMAP' SubClassOf 'software'
'SMAP' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'SMAP' SubClassOf 'is published by' value 'Bioconductor'
'SMAP' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'SMAP' SubClassOf 'implements' some 'Hidden Markov Model'
'SMAP' SubClassOf 'is executed in' some
('data visualization' and 'descriptive statistical calculation')
'SMAP' SubClassOf 'is encoded in' some 'R language'
'SMAP' SubClassOf 'BioConductor Software'
'SMAP' SubClassOf 'R software'
http://edamontology.org/data_0946
Pathway or network annotation
'Pathway or network annotation' SubClassOf 'Obsolete concept (EDAM)'
'Pathway or network annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0945
Peptide identification
'Peptide identification' SubClassOf 'has topic' some 'Proteomics'
'Peptide identification' SubClassOf 'Protein property'
http://www.ebi.ac.uk/efo/swo/SWO_0000383
SLGI
'SLGI' SubClassOf 'software'
'SLGI' SubClassOf 'is encoded in' some 'R language'
'SLGI' SubClassOf 'is published by' value 'Bioconductor'
'SLGI' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'SLGI' SubClassOf 'has specified data input' some 'Annotation data packages'
'SLGI' SubClassOf 'BioConductor Software'
'SLGI' SubClassOf 'R software'
http://edamontology.org/data_0944
Peptide mass fingerprint
'Peptide mass fingerprint' SubClassOf 'has topic' some 'Proteomics'
http://www.ebi.ac.uk/efo/swo/SWO_0000384
SLqPCR
'SLqPCR' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'SLqPCR' SubClassOf 'is encoded in' some 'R language'
'SLqPCR' SubClassOf 'is published by' value 'Bioconductor'
'SLqPCR' SubClassOf 'is executed in' some
('data normalization' and 'descriptive statistical calculation')
'SLqPCR' SubClassOf 'software'
'SLqPCR' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'SLqPCR' SubClassOf 'R software'
'SLqPCR' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000382
SIM
'SIM' SubClassOf 'software'
'SIM' SubClassOf 'has specified data output' some
('Heatmap' and 'Text data set' and 'Graph plot')
'SIM' SubClassOf 'has specified data input' some 'Gene expression data'
'SIM' SubClassOf 'is encoded in' some 'R language'
'SIM' SubClassOf 'implements' some 'Global test'
'SIM' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/license/SWO_10000037
Distribution unrestricted
'Distribution restricted' DisjointWith 'Distribution unrestricted'
http://edamontology.org/data_0953
Version information
'Version information' SubClassOf 'Obsolete concept (EDAM)'
'Version information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_10000038
derivative software allowed
'derivative software not allowed' DisjointWith 'derivative software allowed'
http://edamontology.org/data_0952
EMBOSS database resource definition
'EMBOSS database resource definition' SubClassOf 'Obsolete concept (EDAM)'
'EMBOSS database resource definition' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_10000036
Distribution restricted
'Distribution restricted' DisjointWith 'Distribution unrestricted'
http://www.ebi.ac.uk/efo/swo/SWO_0000396
software developer organization
'software developer organization' EquivalentTo 'has_role' some 'software developer role'
http://www.ebi.ac.uk/efo/swo/SWO_0000397
software publisher organization
'software publisher organization' EquivalentTo 'has_role' some 'publisher role'
http://edamontology.org/data_0956
Data index report
'Data index report' SubClassOf 'has topic' some 'File management'
http://edamontology.org/data_0955
Data index
'Data index' SubClassOf 'has topic' some 'File management'
'Data index' SubClassOf 'data'
'Data index' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/efo/swo/SWO_0000390
SSPA
'SSPA' SubClassOf 'has specified data input' some 'ALL/AML data set'
'SSPA' SubClassOf 'is encoded in' some 'R language'
'SSPA' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' only 'R data frame'))
'SSPA' SubClassOf 'is published by' value 'Bioconductor'
'SSPA' SubClassOf 'software'
'SSPA' SubClassOf 'BioConductor Software'
'SSPA' SubClassOf 'R software'
http://edamontology.org/data_0950
Mathematical model
'Mathematical model' SubClassOf 'data'
'Mathematical model' SubClassOf 'has topic' some 'Computational biology'
'Mathematical model' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/swo/algorithm/OntoDM_175260
pattern discovery algorithm
DisjointClasses: 'clustering algorithm', 'pattern discovery algorithm', 'predictive modeling algorithm'
http://edamontology.org/data_0948
Data resource definition
'Data resource definition' SubClassOf 'Obsolete concept (EDAM)'
'Data resource definition' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0964
Scent annotation
'Scent annotation' SubClassOf 'Obsolete concept (EDAM)'
'Scent annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0962
Small molecule report
'Small molecule report' SubClassOf 'has topic' some 'Small molecules'
http://edamontology.org/data_0968
Keyword
'Keyword' SubClassOf 'data'
'Keyword' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_0959
Job metadata
'Job metadata' SubClassOf 'Obsolete concept (EDAM)'
'Job metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0975
Data resource identifier
'Data resource identifier' SubClassOf 'Obsolete concept (EDAM)'
'Data resource identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0974
Entity identifier
'Entity identifier' SubClassOf 'Obsolete concept (EDAM)'
'Entity identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0979
Entity feature identifier
'Entity feature identifier' SubClassOf 'Obsolete concept (EDAM)'
'Entity feature identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0978
Discrete entity identifier
'Discrete entity identifier' SubClassOf 'Obsolete concept (EDAM)'
'Discrete entity identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0972
Text mining report
'Text mining report' SubClassOf 'Report'
http://edamontology.org/data_0971
Article
'Article' SubClassOf 'has topic' some 'Literature and reference'
'Article' SubClassOf 'data'
'Article' SubClassOf http://edamontology.org/data_3671
http://edamontology.org/data_0987
Chromosome name
'Chromosome name' SubClassOf 'is identifier of' some 'Chromosome report'
http://edamontology.org/data_0986
Chemical identifier
'Chemical identifier' SubClassOf 'Obsolete concept (EDAM)'
'Chemical identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0985
Molecule type
'Molecule type' SubClassOf 'Obsolete concept (EDAM)'
'Molecule type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0989
Protein identifier
'Protein identifier' SubClassOf 'is identifier of' some 'Protein report'
http://edamontology.org/data_0981
Phenomenon identifier
'Phenomenon identifier' SubClassOf 'Obsolete concept (EDAM)'
'Phenomenon identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0980
Entity collection identifier
'Entity collection identifier' SubClassOf 'Obsolete concept (EDAM)'
'Entity collection identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0994
Amino acid identifier
'Amino acid identifier' SubClassOf 'is identifier of' some 'Amino acid property'
http://edamontology.org/data_0993
Drug identifier
'Drug identifier' SubClassOf 'is identifier of' some 'Drug structure'
http://edamontology.org/data_0992
Ligand identifier
'Ligand identifier' SubClassOf 'Obsolete concept (EDAM)'
'Ligand identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1782
NCBI gene report format
'NCBI gene report format' SubClassOf 'Obsolete concept (EDAM)'
'NCBI gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2717
Oligonucleotide probe annotation
'Oligonucleotide probe annotation' SubClassOf 'has topic' some 'Sequence design'
http://edamontology.org/data_2726
Inhibitor annotation
'Inhibitor annotation' SubClassOf 'Obsolete concept (EDAM)'
'Inhibitor annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2722
Protein features report (disordered structure)
'Protein features report (disordered structure)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (disordered structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2724
Embryo report
'Embryo report' SubClassOf 'Obsolete concept (EDAM)'
'Embryo report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1405
Gap opening penalty (float)
'Gap opening penalty (float)' SubClassOf 'Obsolete concept (EDAM)'
'Gap opening penalty (float)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1404
Gap opening penalty (integer)
'Gap opening penalty (integer)' SubClassOf 'Obsolete concept (EDAM)'
'Gap opening penalty (integer)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1409
Gap separation penalty (float)
'Gap separation penalty (float)' SubClassOf 'Obsolete concept (EDAM)'
'Gap separation penalty (float)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2733
Genus name (virus)
'Genus name (virus)' SubClassOf 'Obsolete concept (EDAM)'
'Genus name (virus)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1408
Gap separation penalty (integer)
'Gap separation penalty (integer)' SubClassOf 'Obsolete concept (EDAM)'
'Gap separation penalty (integer)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2734
Family name (virus)
'Family name (virus)' SubClassOf 'Obsolete concept (EDAM)'
'Family name (virus)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1407
Gap extension penalty (float)
'Gap extension penalty (float)' SubClassOf 'Obsolete concept (EDAM)'
'Gap extension penalty (float)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2735
Database name (SwissRegulon)
'Database name (SwissRegulon)' SubClassOf 'Obsolete concept (EDAM)'
'Database name (SwissRegulon)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1406
Gap extension penalty (integer)
'Gap extension penalty (integer)' SubClassOf 'Obsolete concept (EDAM)'
'Gap extension penalty (integer)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1400
Terminal gap penalty
'Terminal gap penalty' SubClassOf 'Obsolete concept (EDAM)'
'Terminal gap penalty' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1747
PDB atom record format
'PDB atom record format' SubClassOf 'Obsolete concept (EDAM)'
'PDB atom record format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1741
Oscar3
'Oscar3' SubClassOf 'Text mining report format'
'Oscar3' SubClassOf 'XML'
'Oscar3' SubClassOf http://edamontology.org/format_3780
http://edamontology.org/format_1740
iHOP text mining abstract format
'iHOP text mining abstract format' SubClassOf 'Textual format'
'iHOP text mining abstract format' SubClassOf 'XML'
'iHOP text mining abstract format' SubClassOf 'HTML'
http://edamontology.org/data_1416
Sequence alignment report (site correlation)
'Sequence alignment report (site correlation)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment report (site correlation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2748
Database name (Osteogenesis)
'Database name (Osteogenesis)' SubClassOf 'Obsolete concept (EDAM)'
'Database name (Osteogenesis)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1415
Sequence alignment report (site conservation)
'Sequence alignment report (site conservation)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment report (site conservation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1414
Sequence alignment metadata (quality report)
'Sequence alignment metadata (quality report)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment metadata (quality report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1418
Sequence-profile alignment (HMM)
'Sequence-profile alignment (HMM)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence-profile alignment (HMM)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1417
Sequence-profile alignment (Domainatrix signature)
'Sequence-profile alignment (Domainatrix signature)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence-profile alignment (Domainatrix signature)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2747
Database name (CMD)
'Database name (CMD)' SubClassOf 'Obsolete concept (EDAM)'
'Database name (CMD)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2740
Gene name (Genolist)
'Gene name (Genolist)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (Genolist)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2743
Gene name (HUGO)
'Gene name (HUGO)' SubClassOf 'Obsolete concept (EDAM)'
'Gene name (HUGO)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1429
Phylogenetic invariants
'Phylogenetic invariants' SubClassOf 'has topic' some 'Genetic variation'
http://edamontology.org/data_2754
Gene features report (intron)
'Gene features report (intron)' SubClassOf 'Obsolete concept (EDAM)'
'Gene features report (intron)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1420
Sequence-profile alignment (fingerprint)
'Sequence-profile alignment (fingerprint)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence-profile alignment (fingerprint)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1761
CATH PDB report format
'CATH PDB report format' SubClassOf 'Obsolete concept (EDAM)'
'CATH PDB report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1760
CATH chain report format
'CATH chain report format' SubClassOf 'Obsolete concept (EDAM)'
'CATH chain report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1438
Phylogenetic report
'Phylogenetic report' SubClassOf 'Obsolete concept (EDAM)'
'Phylogenetic report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2767
Identifier with metadata
'Identifier with metadata' SubClassOf 'Identifier'
'Identifier with metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2768
Gene symbol annotation
'Gene symbol annotation' SubClassOf 'Obsolete concept (EDAM)'
'Gene symbol annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2769
Transcript ID
'Transcript ID' SubClassOf 'is identifier of' some 'Nucleic acid features'
http://edamontology.org/data_2762
Sequence signature report
'Sequence signature report' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/data_2763
Locus annotation
'Locus annotation' SubClassOf 'Obsolete concept (EDAM)'
'Locus annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2765
Term ID list
'Term ID list' SubClassOf 'Obsolete concept (EDAM)'
'Term ID list' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1567
Protein-nucleic acid interactions report
'Protein-nucleic acid interactions report' SubClassOf 'Obsolete concept (EDAM)'
'Protein-nucleic acid interactions report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1561
CATH functional category
'CATH functional category' SubClassOf 'Obsolete concept (EDAM)'
'CATH functional category' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1560
CATH structurally similar group
'CATH structurally similar group' SubClassOf 'Obsolete concept (EDAM)'
'CATH structurally similar group' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1565
Protein-protein interaction report
'Protein-protein interaction report' SubClassOf 'Obsolete concept (EDAM)'
'Protein-protein interaction report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1564
Protein fold recognition report
'Protein fold recognition report' SubClassOf 'Obsolete concept (EDAM)'
'Protein fold recognition report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1586
Nucleic acid melting temperature
'Nucleic acid melting temperature' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid melting temperature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3464
JSON
'JSON' SubClassOf 'Textual format'
'JSON' SubClassOf http://edamontology.org/format_3750
http://edamontology.org/topic_0606
Literature data resources
'Literature data resources' SubClassOf 'Obsolete concept (EDAM)'
'Literature data resources' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0607
Laboratory information management
'Laboratory information management' SubClassOf 'Data management'
'Laboratory information management' SubClassOf 'Informatics'
http://edamontology.org/format_3466
EPS
'EPS' SubClassOf 'Textual format'
'EPS' SubClassOf http://edamontology.org/format_3696
http://edamontology.org/topic_0605
Informatics
'Informatics' SubClassOf 'Obsolete concept (EDAM)'
'Informatics' SubClassOf 'Topic'
http://edamontology.org/topic_0608
Cell and tissue culture
'Cell and tissue culture' SubClassOf 'Obsolete concept (EDAM)'
'Cell and tissue culture' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0602
Molecular interactions, pathways and networks
'Molecular interactions, pathways and networks' SubClassOf 'Biology'
'Molecular interactions, pathways and networks' SubClassOf 'Computational biology'
http://edamontology.org/data_1594
Vienna RNA calculated energy
'Vienna RNA calculated energy' SubClassOf 'Obsolete concept (EDAM)'
'Vienna RNA calculated energy' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1593
Vienna RNA concentration data
'Vienna RNA concentration data' SubClassOf 'Obsolete concept (EDAM)'
'Vienna RNA concentration data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1592
Vienna RNA structure constraints
'Vienna RNA structure constraints' SubClassOf 'Obsolete concept (EDAM)'
'Vienna RNA structure constraints' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1599
Codon adaptation index
'Codon adaptation index' SubClassOf 'Obsolete concept (EDAM)'
'Codon adaptation index' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1597
Codon usage table
'Codon usage table' SubClassOf 'data'
'Codon usage table' SubClassOf 'has topic' some 'Gene expression'
'Codon usage table' SubClassOf 'Codon usage data'
http://edamontology.org/topic_0617
Ribosomes
'Ribosomes' SubClassOf 'Obsolete concept (EDAM)'
'Ribosomes' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0618
Scents
'Scents' SubClassOf 'Obsolete concept (EDAM)'
'Scents' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0616
Organelles
'Organelles' SubClassOf 'Obsolete concept (EDAM)'
'Organelles' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1591
Vienna RNA parameters
'Vienna RNA parameters' SubClassOf 'Obsolete concept (EDAM)'
'Vienna RNA parameters' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0613
Peptides and amino acids
'Peptides and amino acids' SubClassOf 'Small molecules'
'Peptides and amino acids' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0612
Cell cycle
'Cell cycle' SubClassOf 'Obsolete concept (EDAM)'
'Cell cycle' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0629
Gene expression and microarray
'Gene expression and microarray' SubClassOf 'Obsolete concept (EDAM)'
'Gene expression and microarray' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0620
Drugs and target structures
'Drugs and target structures' SubClassOf 'Drug discovery'
'Drugs and target structures' SubClassOf 'Small molecules'
'Drugs and target structures' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0624
Chromosomes
'Chromosomes' SubClassOf 'DNA'
'Chromosomes' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0623
Gene families
'Gene families' SubClassOf 'Genetics'
'Gene families' SubClassOf 'Molecular genetics'
'Gene families' SubClassOf 'Proteins'
http://edamontology.org/topic_0639
Protein sequence analysis
'Protein sequence analysis' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1697
KEGG LIGAND entry format
'KEGG LIGAND entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG LIGAND entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0635
Specific protein resources
'Specific protein resources' SubClassOf 'Obsolete concept (EDAM)'
'Specific protein resources' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1699
KEGG PLANT entry format
'KEGG PLANT entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG PLANT entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1698
KEGG COMPOUND entry format
'KEGG COMPOUND entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG COMPOUND entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0642
Low complexity sequences
'Low complexity sequences' SubClassOf 'Obsolete concept (EDAM)'
'Low complexity sequences' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0640
Nucleic acid sequence analysis
'Nucleic acid sequence analysis' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequence analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0641
Repeat sequences
'Repeat sequences' SubClassOf 'Obsolete concept (EDAM)'
'Repeat sequences' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0644
Proteome
'Proteome' SubClassOf 'Obsolete concept (EDAM)'
'Proteome' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2009
Ordered locus name
'Ordered locus name' SubClassOf 'Obsolete concept (EDAM)'
'Ordered locus name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0655
Coding RNA
'Coding RNA' SubClassOf 'Gene transcript features'
'Coding RNA' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2018
Annotation
'Annotation' SubClassOf 'Obsolete concept (EDAM)'
'Annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0660
rRNA
'rRNA' SubClassOf 'Obsolete concept (EDAM)'
'rRNA' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2019
Map data
'Map data' SubClassOf 'has topic' some 'Mapping'
'Map data' SubClassOf 'data'
'Map data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/format_2195
Ontology format
'Ontology format' SubClassOf 'is format of' some 'Ontology'
http://edamontology.org/format_2197
OWL format
'OWL format' SubClassOf 'XML'
'OWL format' SubClassOf 'Ontology format'
'OWL format' SubClassOf 'RDF format'
http://edamontology.org/topic_0663
tRNA
'tRNA' SubClassOf 'Obsolete concept (EDAM)'
'tRNA' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3356
Hidden Markov model
'Hidden Markov model' SubClassOf 'Mathematical model'
'Hidden Markov model' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2028
Experimental data
'Experimental data' SubClassOf 'Obsolete concept (EDAM)'
'Experimental data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2022
Vienna RNA structural data
'Vienna RNA structural data' SubClassOf 'Obsolete concept (EDAM)'
'Vienna RNA structural data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2023
Sequence mask parameter
'Sequence mask parameter' SubClassOf 'Obsolete concept (EDAM)'
'Sequence mask parameter' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2188
UniProt format
'UniProt format' SubClassOf 'Obsolete concept (EDAM)'
'UniProt format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2189
ipi
'ipi' SubClassOf 'Obsolete concept (EDAM)'
'ipi' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0694
Protein secondary structure
'Protein secondary structure' SubClassOf 'Obsolete concept (EDAM)'
'Protein secondary structure' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2047
Protein sequence record (lite)
'Protein sequence record (lite)' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence record (lite)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2048
Report
'Identifier' DisjointWith 'Report'
'Report' SubClassOf 'data'
'Report' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2043
Sequence record lite
'Sequence record lite' SubClassOf 'Obsolete concept (EDAM)'
'Sequence record lite' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2044
Sequence
'Sequence' SubClassOf 'has topic' some 'Sequence analysis'
'Sequence' SubClassOf 'data'
'Sequence' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2046
Nucleic acid sequence record (lite)
'Nucleic acid sequence record (lite)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequence record (lite)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2041
Genome version information
'Genome version information' SubClassOf 'Obsolete concept (EDAM)'
'Genome version information' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2042
Evidence
'Evidence' SubClassOf 'data'
'Evidence' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/topic_0697
RNA structure
'RNA structure' SubClassOf 'Obsolete concept (EDAM)'
'RNA structure' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000309
OLINgui
'OLINgui' SubClassOf 'is executed in' some 'background correction'
'OLINgui' SubClassOf 'software'
'OLINgui' SubClassOf 'has specified data input' some
('Gene expression data' and ('has format specification' some 'data format specification'))
'OLINgui' SubClassOf 'is encoded in' some 'R language'
'OLINgui' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'OLINgui' SubClassOf 'is executed in' some 'data normalization'
'OLINgui' SubClassOf 'implements' some 'Iterative local regression and model selection'
'OLINgui' SubClassOf 'is executed in' some 'data visualization'
'OLINgui' SubClassOf 'R software'
http://edamontology.org/topic_0698
Protein tertiary structure
'Protein tertiary structure' SubClassOf 'Obsolete concept (EDAM)'
'Protein tertiary structure' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000307
OCplus
'OCplus' SubClassOf 'software'
'OCplus' SubClassOf 'has specified data input' some
('Gene expression data' and ('has format specification' some 'data format specification'))
'OCplus' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'OCplus' SubClassOf 'is encoded in' some 'R language'
'OCplus' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'OCplus' SubClassOf 'implements' some ''FDR''
'OCplus' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000308
OLIN
'OLIN' SubClassOf 'is executed in' some 'correction'
'OLIN' SubClassOf 'is executed in' some 'data normalization'
'OLIN' SubClassOf 'implements' some 'Iterative local regression and model selection'
'OLIN' SubClassOf 'is encoded in' some 'R language'
'OLIN' SubClassOf 'software'
'OLIN' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'OLIN' SubClassOf 'has specified data input' some
('Gene expression data' and ('has format specification' some 'data format specification'))
'OLIN' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000312
OutlierD
'OutlierD' SubClassOf 'has specified data input' some
('LC-MS data' and ('has format specification' some 'data format specification'))
'OutlierD' SubClassOf 'software'
'OutlierD' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'OutlierD' SubClassOf 'is encoded in' some 'R language'
'OutlierD' SubClassOf 'is executed in' some 'data normalization'
'OutlierD' SubClassOf 'implements' some 'Quantile regression techniques'
'OutlierD' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000310
Optiquant
'Optiquant' SubClassOf 'output of' some
('software development process' and ('has participant' value 'PerkinElmer'))
http://www.ebi.ac.uk/efo/swo/SWO_0000311
OrderedList
'OrderedList' SubClassOf 'is encoded in' some 'R language'
'OrderedList' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'OrderedList' SubClassOf 'has specified data output' some
('Gene list' and ('has format specification' some 'data format specification'))
'OrderedList' SubClassOf 'software'
'OrderedList' SubClassOf 'is executed in' some 'differential expression analysis'
'OrderedList' SubClassOf 'implements' some 'Similarity score'
'OrderedList' SubClassOf 'R software'
http://edamontology.org/format_3491
ebwtl
'ebwtl' SubClassOf 'is format of' some 'Genome index'
http://edamontology.org/data_2053
Structural data
'Structural data' SubClassOf 'Obsolete concept (EDAM)'
'Structural data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_3484
ebwt
'ebwt' SubClassOf 'is format of' some 'Genome index'
http://www.ebi.ac.uk/efo/swo/SWO_0000319
PLPE
'PLPE' SubClassOf 'software'
'PLPE' SubClassOf 'implements' some 'Statistical tests'
'PLPE' SubClassOf 'is executed in' some 'differential expression analysis'
'PLPE' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'PLPE' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'PLPE' SubClassOf 'is encoded in' some 'R language'
'PLPE' SubClassOf 'has specified data input' some
('LC-MS data' and ('has format specification' some 'data format specification'))
'PLPE' SubClassOf 'R software'
http://edamontology.org/format_2159
Gene features (coding region) format
'Gene features (coding region) format' SubClassOf 'Gene annotation format'
'Gene features (coding region) format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000316
PCpheno
'PCpheno' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'PCpheno' SubClassOf 'implements' some 'Global test'
'PCpheno' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'PCpheno' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'PCpheno' SubClassOf 'is executed in' some 'differential expression analysis'
'PCpheno' SubClassOf 'software'
'PCpheno' SubClassOf 'is encoded in' some 'R language'
'PCpheno' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'PCpheno' SubClassOf 'implements' some 'Hypergeometric enrichment'
'PCpheno' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000317
PGSEA
'PGSEA' SubClassOf 'is encoded in' some 'R language'
'PGSEA' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'PGSEA' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'data format specification'))
'PGSEA' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'PGSEA' SubClassOf 'software'
'PGSEA' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000314
PAnnBuilder
'PAnnBuilder' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'PAnnBuilder' SubClassOf 'software'
'PAnnBuilder' SubClassOf 'has specified data input' some
('Annotation data packages' and ('has format specification' some 'data format specification'))
'PAnnBuilder' SubClassOf 'is encoded in' some 'R language'
'PAnnBuilder' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000324
Pathways 2.01 software
'Pathways 2.01 software' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Research Genetics'))
http://www.ebi.ac.uk/efo/swo/SWO_0000322
PROcess
'PROcess' SubClassOf 'implements' some 'k-nearest neighbour classification'
'PROcess' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'PROcess' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'PROcess' SubClassOf 'is executed in' some 'background correction'
'PROcess' SubClassOf 'is encoded in' some 'R language'
'PROcess' SubClassOf 'software'
'PROcess' SubClassOf 'has specified data input' some
('CSV data set' and ('has format specification' some 'data format specification'))
'PROcess' SubClassOf 'R software'
http://edamontology.org/format_3475
TSV
'TSV' SubClassOf 'Textual format'
'TSV' SubClassOf http://edamontology.org/format_3751
http://edamontology.org/format_3477
Cytoscape input file format
'Cytoscape input file format' SubClassOf 'Gene expression data format'
'Cytoscape input file format' SubClassOf 'Gene expression report format'
http://edamontology.org/format_3476
Gene expression data format
'Gene expression data format' SubClassOf 'is format of' some 'Gene expression data'
'Gene expression data format' SubClassOf 'Format (typed)'
'Gene expression data format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000329
QuantArray scanner software
'QuantArray scanner software' SubClassOf 'output of' some
('software development process' and ('has participant' value 'PerkinElmer'))
http://www.ebi.ac.uk/efo/swo/SWO_0000335
RBioinf
'RBioinf' SubClassOf 'implements' some 'Linear modelling'
'RBioinf' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
'RBioinf' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'RBioinf' SubClassOf 'software'
'RBioinf' SubClassOf 'is encoded in' some 'R language'
'RBioinf' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000333
RBGL
'RBGL' SubClassOf 'software'
'RBGL' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'gxl format'))
'RBGL' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'RBGL' SubClassOf 'implements' some 'BGL'
'RBGL' SubClassOf 'is executed in' some 'data visualization'
'RBGL' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'RBGL' SubClassOf 'is encoded in' some 'R language'
'RBGL' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'XML'))
'RBGL' SubClassOf 'R software'
http://edamontology.org/data_2079
Search parameter
'Search parameter' SubClassOf 'Obsolete concept (EDAM)'
'Search parameter' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2175
Gene cluster format
'Gene cluster format' SubClassOf 'Obsolete concept (EDAM)'
'Gene cluster format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000338
RLMM
'RLMM' SubClassOf 'is published by' value 'Bioconductor'
'RLMM' SubClassOf 'has specified data input' some ('has format specification' only
('Xba.CQV and Xba.regions' and '.raw files'))
'RLMM' SubClassOf 'software'
'RLMM' SubClassOf 'has specified data output' some 'Graph plot'
'RLMM' SubClassOf 'implements' some 'Mahalanobis distance'
'RLMM' SubClassOf 'is executed in' some 'data normalization'
'RLMM' SubClassOf 'is encoded in' some 'R language'
'RLMM' SubClassOf 'R software'
'RLMM' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000346
RMAGEML
'RMAGEML' SubClassOf 'has specified data input' some ('has format specification' only 'MAGE-ML')
'RMAGEML' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' only 'R data frame'))
'RMAGEML' SubClassOf 'is encoded in' some 'R language'
'RMAGEML' SubClassOf 'software'
'RMAGEML' SubClassOf 'is published by' value 'Bioconductor'
'RMAGEML' SubClassOf 'BioConductor Software'
'RMAGEML' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000343
RMAExpress
'RMAExpress' SubClassOf 'is developed by' value 'University Of California, Berkeley'
'RMAExpress' SubClassOf 'has specified data output' some 'Text data set'
'RMAExpress' SubClassOf 'has specified data input' some ('has format specification' only
('CDF binary format' and 'CEL binary format'))
'RMAExpress' SubClassOf 'implements' some
('background correction' and 'data normalization')
http://edamontology.org/format_2170
Sequence cluster format
'Sequence cluster format' SubClassOf 'is format of' some 'Sequence cluster'
http://edamontology.org/data_2087
Molecular property
'Molecular property' SubClassOf 'data'
'Molecular property' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2083
Alignment data
'Alignment data' SubClassOf 'Obsolete concept (EDAM)'
'Alignment data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2080
Database search results
'Database search results' SubClassOf 'data'
'Database search results' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2081
Secondary structure
'Secondary structure' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2082
Matrix
'Matrix' SubClassOf 'data'
'Matrix' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/efo/swo/SWO_0000349
RWebServices
'RWebServices' SubClassOf 'has specified data input' some ('has format specification' only
('R data frame' and '.data' and '.java file'))
'RWebServices' SubClassOf 'is encoded in' some 'R language'
'RWebServices' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'RWebServices' SubClassOf 'is published by' value 'Bioconductor'
'RWebServices' SubClassOf 'software'
'RWebServices' SubClassOf 'R software'
'RWebServices' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000347
RNAither
'RNAither' SubClassOf 'has specified data input' some 'Text data set'
'RNAither' SubClassOf 'is executed in' some
('data normalization' and 'descriptive statistical calculation')
'RNAither' SubClassOf 'has specified data output' some 'HTML report'
'RNAither' SubClassOf 'software'
'RNAither' SubClassOf 'is encoded in' some 'R language'
'RNAither' SubClassOf 'implements' some 'Gene-Set Enrichment Analysis'
'RNAither' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000348
ROC
'ROC' SubClassOf 'has specified data input' some 'Gene expression dataset'
'ROC' SubClassOf 'is published by' value 'Bioconductor'
'ROC' SubClassOf 'is encoded in' some 'R language'
'ROC' SubClassOf 'software'
'ROC' SubClassOf 'has specified data output' some ('has format specification' only 'R data frame')
'ROC' SubClassOf 'R software'
'ROC' SubClassOf 'BioConductor Software'
http://edamontology.org/format_2919
Sequence annotation track format
'Sequence annotation track format' SubClassOf 'is format of' some 'Annotation track'
http://www.ebi.ac.uk/efo/swo/SWO_0000236
ImageQuant
'ImageQuant' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Molecular Dynamics'))
http://www.ebi.ac.uk/efo/swo/SWO_0000231
ITALICS
'ITALICS' SubClassOf 'has specified data input' some
('Image' and ('has format specification' some 'CEL binary format'))
'ITALICS' SubClassOf 'is executed in' some 'data normalization'
'ITALICS' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'ITALICS' SubClassOf 'is encoded in' some 'R language'
'ITALICS' SubClassOf 'software'
'ITALICS' SubClassOf 'implements' some 'AWS algorithm'
'ITALICS' SubClassOf 'implements' some 'HaarSeg algorithm'
'ITALICS' SubClassOf 'implements' some 'Modified version of the GLAD algorithm (Gain and Loss Analysis of DNA)'
'ITALICS' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000230
IRanges
'IRanges' SubClassOf 'is executed in' some 'data normalization'
'IRanges' SubClassOf 'software'
'IRanges' SubClassOf 'is executed in' some 'decision tree induction'
'IRanges' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'IRanges' SubClassOf 'is encoded in' some 'R language'
'IRanges' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'IRanges' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000238
ImaGene
'ImaGene' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Bio Discovery'))
http://www.ebi.ac.uk/efo/swo/SWO_0000246
KCsmart
'KCsmart' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'KCsmart' SubClassOf 'software'
'KCsmart' SubClassOf 'is executed in' some 'background correction'
'KCsmart' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'KCsmart' SubClassOf 'has specified data input' some
('Graph plot' and ('has format specification' some 'image format'))
'KCsmart' SubClassOf 'implements' some 'Gaussian locally weighted regression'
'KCsmart' SubClassOf 'is executed in' some 'data normalization'
'KCsmart' SubClassOf 'is encoded in' some 'R language'
'KCsmart' SubClassOf 'software with image input'
'KCsmart' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000247
KEGGSOAP
'KEGGSOAP' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'KEGGSOAP' SubClassOf 'software'
'KEGGSOAP' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'KEGGSOAP' SubClassOf 'is encoded in' some 'R language'
'KEGGSOAP' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000245
Jaguar
'Jaguar' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Affymetrix'))
http://www.ebi.ac.uk/efo/swo/SWO_0000241
Initial microarray data processing (data filtering, local normalisation and quality control)
'Initial microarray data processing (data filtering, local normalisation and quality control)' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Bahler Lab'))
http://www.ebi.ac.uk/efo/swo/SWO_0000248
KEGGgraph
'KEGGgraph' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'KGML'))
'KEGGgraph' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'KEGGgraph' SubClassOf 'is encoded in' some 'R language'
'KEGGgraph' SubClassOf 'software'
'KEGGgraph' SubClassOf 'implements' some 'R interface to boost graph library algorithm (RBGL)'
'KEGGgraph' SubClassOf 'R software'
http://edamontology.org/format_1609
Gramene gene report format
'Gramene gene report format' SubClassOf 'Obsolete concept (EDAM)'
'Gramene gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000258
LPE
'LPE' SubClassOf 'software'
'LPE' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'LPE' SubClassOf 'is encoded in' some 'R language'
'LPE' SubClassOf 'is executed in' some 'data normalization'
'LPE' SubClassOf 'implements' some 'Local-pooled-error'
'LPE' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'LPE' SubClassOf 'is executed in' some 'differential expression analysis'
'LPE' SubClassOf 'implements' some ''FDR''
'LPE' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'LPE' SubClassOf 'R software'
http://edamontology.org/format_1606
DragonDB gene report format
'DragonDB gene report format' SubClassOf 'Obsolete concept (EDAM)'
'DragonDB gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1605
CGD gene report format
'CGD gene report format' SubClassOf 'Obsolete concept (EDAM)'
'CGD gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000254
LMGene
'LMGene' SubClassOf 'is encoded in' some 'R language'
'LMGene' SubClassOf 'is executed in' some 'Linear modelling'
'LMGene' SubClassOf 'software'
'LMGene' SubClassOf 'is executed in' some 'data normalization'
'LMGene' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'LMGene' SubClassOf 'implements' some 'Linear modelling'
'LMGene' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'LMGene' SubClassOf 'R software'
http://edamontology.org/format_1608
FlyBase gene report format
'FlyBase gene report format' SubClassOf 'Obsolete concept (EDAM)'
'FlyBase gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1607
EcoCyc gene report format
'EcoCyc gene report format' SubClassOf 'Obsolete concept (EDAM)'
'EcoCyc gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000252
LBE
'LBE' SubClassOf 'is executed in' some 'differential expression analysis'
'LBE' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'LBE' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'LBE' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'LBE' SubClassOf 'software'
'LBE' SubClassOf 'implements' some ''FDR''
'LBE' SubClassOf 'is encoded in' some 'R language'
'LBE' SubClassOf 'R software'
http://edamontology.org/format_1604
DictyBase gene report format
'DictyBase gene report format' SubClassOf 'Obsolete concept (EDAM)'
'DictyBase gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1603
Ensembl gene report format
'Ensembl gene report format' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000259
LPEadj
'LPEadj' SubClassOf 'is executed in' some 'data normalization'
'LPEadj' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'LPEadj' SubClassOf 'is encoded in' some 'R language'
'LPEadj' SubClassOf 'is executed in' some 'differential expression analysis'
'LPEadj' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'LPEadj' SubClassOf 'software'
'LPEadj' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'LPEadj' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'LPEadj' SubClassOf 'implements' some 'Local-pooled-error'
'LPEadj' SubClassOf 'implements' some ''FDR''
'LPEadj' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000269
MANOR
'MANOR' SubClassOf 'implements' some 'HaarSeg algorithm'
'MANOR' SubClassOf 'is executed in' some
('data visualization' and 'data normalization')
'MANOR' SubClassOf 'implements' some 'AWS algorithm'
'MANOR' SubClassOf 'implements' some 'Modified version of the GLAD algorithm (Gain and Loss Analysis of DNA)'
'MANOR' SubClassOf 'is encoded in' some 'R language'
'MANOR' SubClassOf 'software'
'MANOR' SubClassOf 'has specified data output' some 'Graph plot'
'MANOR' SubClassOf 'R software'
http://edamontology.org/format_2921
Sequence variation annotation format
'Sequence variation annotation format' SubClassOf 'is format of' some 'Sequence variations'
http://edamontology.org/format_2920
Alignment format (pair only)
'Alignment format (pair only)' SubClassOf 'is format of' some 'Sequence alignment (pair)'
http://www.ebi.ac.uk/efo/swo/SWO_0000279
MCRestimate
'MCRestimate' SubClassOf 'software'
'MCRestimate' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'R data frame'))
'MCRestimate' SubClassOf 'is encoded in' some 'R language'
'MCRestimate' SubClassOf 'has specified data input' some
('ALL/AML data set' and ('has format specification' some 'data format specification'))
'MCRestimate' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000275
MAVI Pro
'MAVI Pro' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'MWG Biotech'))
http://www.ebi.ac.uk/efo/swo/SWO_0000271
MIcroarray Analysis Suite
'MIcroarray Analysis Suite' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Affymetrix'))
http://edamontology.org/operation_3090
Protein feature prediction (from structure)
'Protein feature prediction (from structure)' SubClassOf 'Obsolete concept (EDAM)'
'Protein feature prediction (from structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3094
Protein interaction network prediction
'Protein interaction network prediction' SubClassOf 'has topic' some 'Protein interactions'
'Protein interaction network prediction' SubClassOf 'has output' some 'Protein interaction report'
http://edamontology.org/operation_3093
Database search (by sequence)
'Database search (by sequence)' SubClassOf 'Obsolete concept (EDAM)'
'Database search (by sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3092
Protein feature detection
'Protein feature detection' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Protein feature detection' SubClassOf 'has output' some 'Protein features'
http://www.ebi.ac.uk/efo/swo/SWO_0000288
MantelCorr
'MantelCorr' SubClassOf 'is encoded in' some 'R language'
'MantelCorr' SubClassOf 'implements' some 'k-means'
'MantelCorr' SubClassOf 'software'
'MantelCorr' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'MantelCorr' SubClassOf 'has specified data output' some
('Clustered data set' and ('has format specification' some 'data format specification'))
'MantelCorr' SubClassOf 'is executed in' some 'differential expression analysis'
'MantelCorr' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000289
MassSpecWavelet
'MassSpecWavelet' SubClassOf 'software'
'MassSpecWavelet' SubClassOf 'implements' some 'Continuous Wavelet Transform (CWT)-based peak detection algorithm'
'MassSpecWavelet' SubClassOf 'is encoded in' some 'R language'
'MassSpecWavelet' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'MassSpecWavelet' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'MassSpecWavelet' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000285
MVCClass
'MVCClass' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'MVCClass' SubClassOf 'is executed in' some 'data visualization'
'MVCClass' SubClassOf 'is encoded in' some 'R language'
'MVCClass' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'MVCClass' SubClassOf 'software'
'MVCClass' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000283
MLInterfaces
'MLInterfaces' SubClassOf 'has specified data output' some
('ALL/AML data set' and ('has format specification' some 'data format specification'))
'MLInterfaces' SubClassOf 'is encoded in' some 'R language'
'MLInterfaces' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'MLInterfaces' SubClassOf 'software'
'MLInterfaces' SubClassOf 'implements' some 'k-nearest neighbour classification'
'MLInterfaces' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000280
MEDME
'MEDME' SubClassOf 'software'
'MEDME' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'GFF'))
'MEDME' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'MEDME' SubClassOf 'is encoded in' some 'R language'
'MEDME' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000295
MiPP
'MiPP' SubClassOf 'is executed in' some 'data normalization'
'MiPP' SubClassOf 'has specified data input' some
('ALL/AML data set' and ('has format specification' some 'data format specification'))
'MiPP' SubClassOf 'is encoded in' some 'R language'
'MiPP' SubClassOf 'implements' some 'Misclassification-Penalized Posteriors (MiPP)'
'MiPP' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'MiPP' SubClassOf 'software'
'MiPP' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000293
MergeMaid
'MergeMaid' SubClassOf 'software'
'MergeMaid' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'MergeMaid' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'MergeMaid' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'MergeMaid' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'MergeMaid' SubClassOf 'is encoded in' some 'R language'
'MergeMaid' SubClassOf 'implements' some 'Logic regression'
'MergeMaid' SubClassOf 'implements' some 'Regression model'
'MergeMaid' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000294
Mfuzz
'Mfuzz' SubClassOf 'implements' some 'clustering algorithm'
'Mfuzz' SubClassOf 'is encoded in' some 'R language'
'Mfuzz' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'Mfuzz' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'Mfuzz' SubClassOf 'software'
'Mfuzz' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'Mfuzz' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000292
MeasurementError.cor
'MeasurementError.cor' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'MeasurementError.cor' SubClassOf 'is encoded in' some 'R language'
'MeasurementError.cor' SubClassOf 'implements' some 'Two-stage measurement error model'
'MeasurementError.cor' SubClassOf 'software'
'MeasurementError.cor' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'MeasurementError.cor' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'MeasurementError.cor' SubClassOf 'R software'
http://edamontology.org/topic_2399
Gene transcription features
'Gene transcription features' SubClassOf 'Gene structure'
'Gene transcription features' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2800
Orpha number
'Orpha number' SubClassOf 'is identifier of' some 'Disease report'
http://edamontology.org/topic_2397
Exons
'Exons' SubClassOf 'Coding RNA'
'Exons' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3080
Structure editing
'Structure editing' SubClassOf 'has input' some 'Structure'
http://edamontology.org/operation_3084
Protein function prediction (from sequence)
'Protein function prediction (from sequence)' SubClassOf 'Obsolete concept (EDAM)'
'Protein function prediction (from sequence)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_3083
Pathway or network visualisation
'Pathway or network visualisation' SubClassOf 'has input' some 'Pathway or network'
'Pathway or network visualisation' SubClassOf 'Pathway or network processing'
'Pathway or network visualisation' SubClassOf 'Pathway or network analysis'
http://edamontology.org/data_2812
Lipid identifier
'Lipid identifier' SubClassOf 'is identifier of' some 'Lipid structure'
'Lipid identifier' SubClassOf 'is identifier of' some 'Lipid report'
http://edamontology.org/format_1666
BioModel mathematical model format
'BioModel mathematical model format' SubClassOf 'Obsolete concept (EDAM)'
'BioModel mathematical model format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1651
PATIKA entry format
'PATIKA entry format' SubClassOf 'Obsolete concept (EDAM)'
'PATIKA entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1650
INOH entry format
'INOH entry format' SubClassOf 'Obsolete concept (EDAM)'
'INOH entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1653
aMAZE entry format
'aMAZE entry format' SubClassOf 'Obsolete concept (EDAM)'
'aMAZE entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1652
Reactome entry format
'Reactome entry format' SubClassOf 'Obsolete concept (EDAM)'
'Reactome entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1655
Panther Pathways entry format
'Panther Pathways entry format' SubClassOf 'Obsolete concept (EDAM)'
'Panther Pathways entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1654
CPDB entry format
'CPDB entry format' SubClassOf 'Obsolete concept (EDAM)'
'CPDB entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2838
Experimental data (proteomics)
'Experimental data (proteomics)' SubClassOf 'Obsolete concept (EDAM)'
'Experimental data (proteomics)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2832
Web portal
'Web portal' SubClassOf 'Obsolete concept (EDAM)'
'Web portal' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2831
Databank
'Databank' SubClassOf 'Obsolete concept (EDAM)'
'Databank' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1517
Restriction enzyme report
'Restriction enzyme report' SubClassOf 'Obsolete concept (EDAM)'
'Restriction enzyme report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1509
Enzyme report
'Enzyme report' SubClassOf 'Obsolete concept (EDAM)'
'Enzyme report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2857
Article metadata
'Article metadata' SubClassOf 'Obsolete concept (EDAM)'
'Article metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1624
HGVbase entry format
'HGVbase entry format' SubClassOf 'Obsolete concept (EDAM)'
'HGVbase entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1623
OMIM entry format
'OMIM entry format' SubClassOf 'Obsolete concept (EDAM)'
'OMIM entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1626
KEGG DISEASE entry format
'KEGG DISEASE entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG DISEASE entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1625
HIVDB entry format
'HIVDB entry format' SubClassOf 'Obsolete concept (EDAM)'
'HIVDB entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1620
dbSNP polymorphism report format
'dbSNP polymorphism report format' SubClassOf 'Obsolete concept (EDAM)'
'dbSNP polymorphism report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2869
Nucleic acid features report (RFLP)
'Nucleic acid features report (RFLP)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (RFLP)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1536
MHC peptide immunogenicity report
'MHC peptide immunogenicity report' SubClassOf 'Obsolete concept (EDAM)'
'MHC peptide immunogenicity report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1617
WormBase gene report format
'WormBase gene report format' SubClassOf 'Obsolete concept (EDAM)'
'WormBase gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2866
Northern blot report
'Northern blot report' SubClassOf 'Obsolete concept (EDAM)'
'Northern blot report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1616
TAIR gene report format
'TAIR gene report format' SubClassOf 'Obsolete concept (EDAM)'
'TAIR gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2867
Nucleic acid features report (VNTR)
'Nucleic acid features report (VNTR)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (VNTR)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1619
TIGR gene report format
'TIGR gene report format' SubClassOf 'Obsolete concept (EDAM)'
'TIGR gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2868
Nucleic acid features report (microsatellite)
'Nucleic acid features report (microsatellite)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (microsatellite)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1618
ZFIN gene report format
'ZFIN gene report format' SubClassOf 'Obsolete concept (EDAM)'
'ZFIN gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1533
Protein subcellular localization
'Protein subcellular localization' SubClassOf 'Obsolete concept (EDAM)'
'Protein subcellular localization' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1613
RGD gene report format
'RGD gene report format' SubClassOf 'Obsolete concept (EDAM)'
'RGD gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1612
MGD gene report format
'MGD gene report format' SubClassOf 'Obsolete concept (EDAM)'
'MGD gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1615
GeneDB gene report format
'GeneDB gene report format' SubClassOf 'Obsolete concept (EDAM)'
'GeneDB gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1614
SGD gene report format
'SGD gene report format' SubClassOf 'Obsolete concept (EDAM)'
'SGD gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1611
MaizeGDB gene report format
'MaizeGDB gene report format' SubClassOf 'Obsolete concept (EDAM)'
'MaizeGDB gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1610
KEGG GENES gene report format
'KEGG GENES gene report format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG GENES gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1548
Protein residue 3D cluster
'Protein residue 3D cluster' SubClassOf 'Protein residue interactions'
'Protein residue 3D cluster' SubClassOf 'Protein interaction report'
http://edamontology.org/data_1547
Protein contact map
'Protein contact map' SubClassOf 'Protein residue interactions'
'Protein contact map' SubClassOf 'Protein interaction report'
http://edamontology.org/data_1546
Protein distance matrix
'Protein distance matrix' SubClassOf 'Protein residue interactions'
'Protein distance matrix' SubClassOf 'Distance matrix'
'Protein distance matrix' SubClassOf 'Protein interaction report'
http://edamontology.org/format_1649
HumanCyc entry format
'HumanCyc entry format' SubClassOf 'Obsolete concept (EDAM)'
'HumanCyc entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1549
Protein hydrogen bonds
'Protein hydrogen bonds' SubClassOf 'Protein residue interactions'
'Protein hydrogen bonds' SubClassOf 'Protein interaction report'
http://edamontology.org/data_1540
Protein residue interactions
'Protein residue interactions' SubClassOf 'has topic' some 'Protein folding, stability and design'
'Protein residue interactions' SubClassOf 'Protein property'
'Protein residue interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2874
Sequence set (polymorphic)
'Sequence set (polymorphic)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence set (polymorphic)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2875
DRCAT resource
'DRCAT resource' SubClassOf 'Obsolete concept (EDAM)'
'DRCAT resource' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1543
Protein surface report
'Protein surface report' SubClassOf 'Obsolete concept (EDAM)'
'Protein surface report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1542
Protein solvent accessibility
'Protein solvent accessibility' SubClassOf 'Protein residue interactions'
'Protein solvent accessibility' SubClassOf 'Protein structure report'
http://edamontology.org/data_1541
Protein flexibility or motion report
'Protein flexibility or motion report' SubClassOf 'Obsolete concept (EDAM)'
'Protein flexibility or motion report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1640
ArrayExpress entry format
'ArrayExpress entry format' SubClassOf 'Obsolete concept (EDAM)'
'ArrayExpress entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1645
EMDB entry format
'EMDB entry format' SubClassOf 'Obsolete concept (EDAM)'
'EMDB entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1648
MetaCyc entry format
'MetaCyc entry format' SubClassOf 'Obsolete concept (EDAM)'
'MetaCyc entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1647
KEGG PATHWAY entry format
'KEGG PATHWAY entry format' SubClassOf 'Obsolete concept (EDAM)'
'KEGG PATHWAY entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1644
CHP
'CHP' SubClassOf 'is format of' some 'Processed microarray data'
http://edamontology.org/data_1559
CATH homologous superfamily
'CATH homologous superfamily' SubClassOf 'Obsolete concept (EDAM)'
'CATH homologous superfamily' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1558
CATH topology
'CATH topology' SubClassOf 'Obsolete concept (EDAM)'
'CATH topology' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1557
CATH architecture
'CATH architecture' SubClassOf 'Obsolete concept (EDAM)'
'CATH architecture' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1556
CATH class
'CATH class' SubClassOf 'Obsolete concept (EDAM)'
'CATH class' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2888
Protein sequence record (full)
'Protein sequence record (full)' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence record (full)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1638
cel
'cel' SubClassOf 'is format of' some 'Raw microarray data'
http://edamontology.org/data_2889
Nucleic acid sequence record (full)
'Nucleic acid sequence record (full) ' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequence record (full) ' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2883
RNA features report
'RNA features report' SubClassOf 'Obsolete concept (EDAM)'
'RNA features report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2884
Plot
'Plot' SubClassOf 'data'
'Plot' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_1550
Protein non-canonical interactions
'Protein non-canonical interactions' SubClassOf 'Obsolete concept (EDAM)'
'Protein non-canonical interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2885
Nucleic acid features report (polymorphism)
'Nucleic acid features report (polymorphism)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (polymorphism)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1555
EMBASSY domain classification
'EMBASSY domain classification' SubClassOf 'Obsolete concept (EDAM)'
'EMBASSY domain classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1554
SCOP node
'SCOP node' SubClassOf 'Obsolete concept (EDAM)'
'SCOP node' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2880
Secondary structure image
'Secondary structure image' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure image' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1553
CATH node
'CATH node' SubClassOf 'Obsolete concept (EDAM)'
'CATH node' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2881
Secondary structure report
'Secondary structure report' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2882
DNA features
'DNA features' SubClassOf 'Obsolete concept (EDAM)'
'DNA features' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1637
dat
'dat' SubClassOf 'is format of' some 'Microarray spots image'
http://edamontology.org/data_2539
Alignment data
'Alignment data' SubClassOf 'Obsolete concept (EDAM)'
'Alignment data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2533
Nucleic acid features report (mutation)
'Nucleic acid features report (mutation)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (mutation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2534
Sequence attribute
'Sequence attribute' SubClassOf 'Parameter'
'Sequence attribute' SubClassOf http://edamontology.org/data_0006
http://www.ifomis.org/bfo/1.1/snap#Role
role
'Obsolete concept (EDAM)' DisjointWith 'role'
http://edamontology.org/data_2540
Data index data
'Data index data' SubClassOf 'Obsolete concept (EDAM)'
'Data index data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0565
Sequence alignment visualisation
'Sequence alignment visualisation' SubClassOf 'has input' some 'Sequence alignment'
'Sequence alignment visualisation' SubClassOf 'Visualisation'
'Sequence alignment visualisation' SubClassOf 'Sequence analysis'
'Sequence alignment visualisation' SubClassOf 'has output' some 'Sequence alignment image'
'Sequence alignment visualisation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0566
Sequence cluster visualisation
'Sequence cluster visualisation' SubClassOf 'has topic' some 'Sequence comparison'
'Sequence cluster visualisation' SubClassOf 'has input' some 'Sequence cluster'
http://edamontology.org/operation_0563
Codon usage table formatting
'Codon usage table formatting' SubClassOf 'Codon usage table processing'
'Codon usage table formatting' SubClassOf 'has output' some 'Codon usage table'
'Codon usage table formatting' SubClassOf 'Formatting'
'Codon usage table formatting' SubClassOf 'has input' some 'Codon usage table'
'Codon usage table formatting' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0564
Sequence visualisation
'Sequence visualisation' SubClassOf 'has output' some 'Sequence image'
'Sequence visualisation' SubClassOf 'has input' some 'Sequence'
http://edamontology.org/operation_0569
Protein secondary structure rendering
Protein secondary structure visualisation
'Protein secondary structure rendering' SubClassOf 'has topic' some 'Protein structure analysis'
'Protein secondary structure rendering' SubClassOf 'Visualisation'
'Protein secondary structure rendering' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0567
Phylogenetic tree visualisation
'Phylogenetic tree visualisation' SubClassOf 'has output' some 'Phylogenetic tree'
'Phylogenetic tree visualisation' SubClassOf 'Phylogenetic tree processing'
'Phylogenetic tree visualisation' SubClassOf 'Phylogenetic tree analysis'
http://edamontology.org/operation_0568
RNA secondary structure visualisation
'RNA secondary structure visualisation' SubClassOf 'has input' some 'RNA secondary structure'
'RNA secondary structure visualisation' SubClassOf 'RNA secondary structure analysis'
'RNA secondary structure visualisation' SubClassOf 'Visualisation'
'RNA secondary structure visualisation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0561
Sequence formatting
'Sequence formatting' SubClassOf 'Formatting'
'Sequence formatting' SubClassOf 'has output' some 'Sequence'
'Sequence formatting' SubClassOf 'has input' some 'Sequence'
'Sequence formatting' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0562
Sequence alignment formatting
'Sequence alignment formatting' SubClassOf 'has output' some 'Sequence alignment'
'Sequence alignment formatting' SubClassOf 'has input' some 'Sequence alignment'
'Sequence alignment formatting' SubClassOf 'Formatting'
'Sequence alignment formatting' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0560
DNA vaccine design
'DNA vaccine design' SubClassOf 'has topic' some 'Nucleic acid structure prediction'
'DNA vaccine design' SubClassOf 'Design'
'DNA vaccine design' SubClassOf 'has topic' some 'Immunology'
http://edamontology.org/operation_0577
DNA linear map rendering
'DNA linear map rendering' SubClassOf 'Obsolete concept (EDAM)'
'DNA linear map rendering' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1238
Proteolytic digest
'Proteolytic digest' SubClassOf 'has topic' some 'Proteomics'
http://edamontology.org/operation_0574
Sequence motif rendering
'Sequence motif rendering' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif rendering' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1237
HMMER synthetic sequences set
'HMMER synthetic sequences set' SubClassOf 'Obsolete concept (EDAM)'
'HMMER synthetic sequences set' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0575
Restriction map drawing
'Restriction map drawing' SubClassOf 'has output' some 'Restriction map'
http://edamontology.org/operation_0579
Operon drawing
'Operon drawing' SubClassOf 'has topic' some 'Gene structure'
http://edamontology.org/data_1236
Psiblast checkpoint file
'Psiblast checkpoint file' SubClassOf 'Obsolete concept (EDAM)'
'Psiblast checkpoint file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0572
Protein interaction network rendering
Protein interaction network visualisation
'Protein interaction network rendering' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/data_1235
Sequence cluster
'Sequence cluster' SubClassOf 'has topic' some 'Protein families'
'Sequence cluster' SubClassOf 'has topic' some 'Sequence comparison'
http://edamontology.org/operation_0573
Map drawing
'Map drawing' SubClassOf 'has input' some 'Map'
http://edamontology.org/operation_0570
Structure visualisation
'Structure visualisation' SubClassOf 'has input' some 'Structure'
'Structure visualisation' SubClassOf 'has output' some 'Structure image'
http://edamontology.org/operation_0571
Microarray data rendering
'Microarray data rendering' SubClassOf 'has input' some 'Microarray hybridisation data'
http://edamontology.org/data_2579
Expressed gene list
'Expressed gene list' SubClassOf 'Obsolete concept (EDAM)'
'Expressed gene list' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1243
Primer3 mispriming library file
'Primer3 mispriming library file' SubClassOf 'Obsolete concept (EDAM)'
'Primer3 mispriming library file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1242
Primer3 internal oligo mishybridizing library
'Primer3 internal oligo mishybridizing library' SubClassOf 'Obsolete concept (EDAM)'
'Primer3 internal oligo mishybridizing library' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2576
Toxin identifier
'Toxin identifier' SubClassOf 'is identifier of' some 'Toxin structure'
http://edamontology.org/data_1241
vectorstrip cloning vector definition file
'vectorstrip cloning vector definition file' SubClassOf 'Obsolete concept (EDAM)'
'vectorstrip cloning vector definition file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1244
primersearch primer pairs sequence record
'primersearch primer pairs sequence record' SubClassOf 'Obsolete concept (EDAM)'
'primersearch primer pairs sequence record' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1253
Sequence information report
'Sequence information report' SubClassOf 'Obsolete concept (EDAM)'
'Sequence information report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1252
Sequence length range
'Sequence length range' SubClassOf 'Obsolete concept (EDAM)'
'Sequence length range' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1251
Window size
'Window size' SubClassOf 'Obsolete concept (EDAM)'
'Window size' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2589
Hierarchy
'Hierarchy' SubClassOf 'data'
'Hierarchy' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_1258
Sequence property (nucleic acid)
'Sequence property (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence property (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1257
Sequence property (protein)
'Sequence property (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence property (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1256
Sequence features (comparative)
'Sequence features (comparative)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence features (comparative)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2584
GO concept name (cellular component)
'GO concept name (cellular component)' SubClassOf 'Obsolete concept (EDAM)'
'GO concept name (cellular component)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1255
Sequence features
'Sequence features' SubClassOf 'data'
'Sequence features' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2581
GO concept name
'GO concept name' SubClassOf 'Obsolete concept (EDAM)'
'GO concept name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1250
Word size
'Word size' SubClassOf 'Obsolete concept (EDAM)'
'Word size' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1264
Sequence composition table
'Sequence composition table' SubClassOf 'Obsolete concept (EDAM)'
'Sequence composition table' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2598
Secondary structure alignment metadata
'Secondary structure alignment metadata' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure alignment metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2599
Molecule interaction report
'Molecule interaction report' SubClassOf 'Obsolete concept (EDAM)'
'Molecule interaction report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1269
DAS sequence feature annotation
'DAS sequence feature annotation' SubClassOf 'Obsolete concept (EDAM)'
'DAS sequence feature annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2590
Hierarchy identifier
'Hierarchy identifier' SubClassOf 'Obsolete concept (EDAM)'
'Hierarchy identifier' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2592
Cancer type
'Cancer type' SubClassOf 'Obsolete concept (EDAM)'
'Cancer type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1274
Map
'Map' SubClassOf 'data'
'Map' SubClassOf 'has topic' some 'Mapping'
'Map' SubClassOf 'Map data'
http://edamontology.org/data_1281
Sequence signature map
'Sequence signature map' SubClassOf 'Obsolete concept (EDAM)'
'Sequence signature map' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1298
Sequence motif matches
'Sequence motif matches' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif matches' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1299
Sequence features (repeats)
'Sequence features (repeats)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence features (repeats)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1290
InterPro compact match image
'InterPro compact match image' SubClassOf 'Obsolete concept (EDAM)'
'InterPro compact match image' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1294
GlobPlot domain image
'GlobPlot domain image' SubClassOf 'Obsolete concept (EDAM)'
'GlobPlot domain image' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1293
SMART protein schematic
'SMART protein schematic' SubClassOf 'Obsolete concept (EDAM)'
'SMART protein schematic' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1292
InterPro architecture image
'InterPro architecture image' SubClassOf 'Obsolete concept (EDAM)'
'InterPro architecture image' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1291
InterPro detailed match image
'InterPro detailed match image' SubClassOf 'Obsolete concept (EDAM)'
'InterPro detailed match image' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3026
GO concept name (biological process)
'GO concept name (biological process)' SubClassOf 'Obsolete concept (EDAM)'
'GO concept name (biological process)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3027
GO concept name (molecular function)
'GO concept name (molecular function)' SubClassOf 'Obsolete concept (EDAM)'
'GO concept name (molecular function)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3028
Taxonomy
'Taxonomy' SubClassOf 'data'
'Taxonomy' SubClassOf 'has topic' some 'Phylogeny'
'Taxonomy' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_3025
Ontology concept identifier
'Ontology concept identifier' SubClassOf 'is identifier of' some 'Ontology concept'
http://edamontology.org/data_3021
UniProt accession
'UniProt accession' SubClassOf 'is identifier of' some 'Sequence record'
http://www.ebi.ac.uk/efo/swo/SWO_0000202
GeneticsDesign
'GeneticsDesign' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GeneticsDesign' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'GeneticsDesign' SubClassOf 'software'
'GeneticsDesign' SubClassOf 'is encoded in' some 'R language'
'GeneticsDesign' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000203
GeneticsPed
'GeneticsPed' SubClassOf 'implements' some 'Mixed model equations'
'GeneticsPed' SubClassOf 'is encoded in' some 'R language'
'GeneticsPed' SubClassOf 'is published by' value 'Bioconductor'
'GeneticsPed' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GeneticsPed' SubClassOf 'has specified data input' some ('has format specification' only 'pedigree data file')
'GeneticsPed' SubClassOf 'software'
'GeneticsPed' SubClassOf 'BioConductor Software'
'GeneticsPed' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000201
GeneticsBase
'GeneticsBase' SubClassOf 'software'
'GeneticsBase' SubClassOf 'has specified data input' some 'CSV data set'
'GeneticsBase' SubClassOf 'is encoded in' some 'R language'
'GeneticsBase' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
'GeneticsBase' SubClassOf 'is published by' value 'Bioconductor'
'GeneticsBase' SubClassOf 'has specified data input' some ('has format specification' only 'pedigree data file')
'GeneticsBase' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
'GeneticsBase' SubClassOf 'BioConductor Software'
'GeneticsBase' SubClassOf 'R software'
http://edamontology.org/topic_0594
Sequence classification
'Sequence classification' SubClassOf 'Sequence analysis'
'Sequence classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0595
Protein classification
'Protein classification' SubClassOf 'Obsolete concept (EDAM)'
'Protein classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3034
Sequence feature identifier
'Sequence feature identifier' SubClassOf 'is identifier of' some 'Sequence features'
http://edamontology.org/data_3035
Structure identifier
'Structure identifier' SubClassOf 'is identifier of' some 'Structure'
http://edamontology.org/data_3036
Matrix identifier
'Matrix identifier' SubClassOf 'is identifier of' some 'Matrix'
http://edamontology.org/data_3031
Core data
'Core data' SubClassOf 'Obsolete concept (EDAM)'
'Core data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_0598
Sequence motif or profile
'Sequence motif or profile' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif or profile' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000208
GraphAT
'GraphAT' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'GraphAT' SubClassOf 'implements' some 'k-means'
'GraphAT' SubClassOf 'has specified data input' some
('Clustered data set' and ('has format specification' some 'data format specification'))
'GraphAT' SubClassOf 'software'
'GraphAT' SubClassOf 'is encoded in' some 'R language'
'GraphAT' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000209
GraphAlignment
'GraphAlignment' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GraphAlignment' SubClassOf 'is encoded in' some 'R language'
'GraphAlignment' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GraphAlignment' SubClassOf 'software'
'GraphAlignment' SubClassOf 'implements' some 'Bayesian Model'
'GraphAlignment' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000206
GlobalAncova
'GlobalAncova' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GlobalAncova' SubClassOf 'software'
'GlobalAncova' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'GlobalAncova' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'GlobalAncova' SubClassOf 'is executed in' some 'differential expression analysis'
'GlobalAncova' SubClassOf 'implements' some 'ANCOVA'
'GlobalAncova' SubClassOf 'is encoded in' some 'R language'
'GlobalAncova' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000207
GOSemSim
'GOSemSim' SubClassOf 'software'
'GOSemSim' SubClassOf 'has specified data output' some
('Clustered data set' and ('has format specification' some 'R data frame'))
'GOSemSim' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'GOSemSim' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'GOSemSim' SubClassOf 'is encoded in' some 'R language'
'GOSemSim' SubClassOf 'implements' some 'Semantic Similarity Measures'
'GOSemSim' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000205
GenomeGraphs
'GenomeGraphs' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GenomeGraphs' SubClassOf 'is encoded in' some 'R language'
'GenomeGraphs' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'GenomeGraphs' SubClassOf 'software'
'GenomeGraphs' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000213
HELP
'HELP' SubClassOf 'is executed in' some 'data normalization'
'HELP' SubClassOf 'implements' some
('RMA' and 'k-nearest neighbour classification')
'HELP' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'pair file'))
'HELP' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'HELP' SubClassOf 'is executed in' some 'data visualization'
'HELP' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'design file'))
'HELP' SubClassOf 'software'
'HELP' SubClassOf 'is encoded in' some 'R language'
'HELP' SubClassOf 'is executed in' some 'background correction'
'HELP' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'HELP' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000214
HEM
'HEM' SubClassOf 'software'
'HEM' SubClassOf 'implements' some 'Empirical Bayes rule'
'HEM' SubClassOf 'is encoded in' some 'R language'
'HEM' SubClassOf 'implements' some 'Heterogeneous Error Model (HEM)'
'HEM' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'HEM' SubClassOf 'implements' some ''FDR''
'HEM' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'HEM' SubClassOf 'implements' some 'Markov Chain Monte Carlo'
'HEM' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000210
GridGrinder
'GridGrinder' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Grid grinder'))
http://www.ebi.ac.uk/efo/swo/SWO_0000224
Heatplus
'Heatplus' SubClassOf 'has specified data output' some
('Heatmap' and ('has format specification' some 'image format'))
'Heatplus' SubClassOf 'is encoded in' some 'R language'
'Heatplus' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'Heatplus' SubClassOf 'is executed in' some 'data visualization'
'Heatplus' SubClassOf 'software'
'Heatplus' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000225
HilbertVis
'HilbertVis' SubClassOf 'is encoded in' some 'R language'
'HilbertVis' SubClassOf 'software'
'HilbertVis' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'GFF'))
'HilbertVis' SubClassOf 'is executed in' some 'data normalization'
'HilbertVis' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'HilbertVis' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'BED format'))
'HilbertVis' SubClassOf 'is executed in' some 'data visualization'
'HilbertVis' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000222
Harshlight
'Harshlight' SubClassOf 'is encoded in' some 'R language'
'Harshlight' SubClassOf 'implements' some 'RMA'
'Harshlight' SubClassOf 'implements' some ''MAS5''
'Harshlight' SubClassOf 'software'
'Harshlight' SubClassOf 'has specified data input' some
('Image' and ('has format specification' some 'CEL binary format'))
'Harshlight' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'PostScript'))
'Harshlight' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000228
ICS-501 (version 2.3) Image Capture System
'ICS-501 (version 2.3) Image Capture System' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Genicon Sciences'))
http://www.ebi.ac.uk/efo/swo/SWO_0000226
HilbertVisGUI
'HilbertVisGUI' SubClassOf 'software'
'HilbertVisGUI' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'BED format'))
'HilbertVisGUI' SubClassOf 'is encoded in' some 'R language'
'HilbertVisGUI' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'GFF'))
'HilbertVisGUI' SubClassOf 'is executed in' some 'data visualization'
'HilbertVisGUI' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'HilbertVisGUI' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000115
MAGE-TAB inputting software
'MAGE-TAB inputting software' EquivalentTo 'has specified data input' some
('data' and ('has format specification' some 'MAGE-TAB'))
http://edamontology.org/topic_3531
Protein super-secondary structure
'Protein super-secondary structure' SubClassOf 'Protein structural motifs and surfaces'
'Protein super-secondary structure' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000111
R software
'R software' EquivalentTo 'is encoded in' some 'R language'
http://edamontology.org/topic_3530
Genetic information processing pathways
'Genetic information processing pathways' SubClassOf 'Molecular interactions, pathways and networks'
'Genetic information processing pathways' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_9000074
MIT License
'MIT License' SubClassOf 'software license'
'MIT License' SubClassOf 'has clause' some 'Time for use unrestricted'
'MIT License' SubClassOf 'has clause' some 'Number of installations unrestricted'
'MIT License' SubClassOf 'has clause' some 'Usage unrestricted'
'MIT License' SubClassOf 'has clause' some 'Source code available'
'MIT License' SubClassOf 'has clause' some 'Distribution with notices'
'MIT License' SubClassOf 'has clause' some 'Number of users unrestricted'
'MIT License' SubClassOf 'has clause' some 'derivative software allowed'
'MIT License' SubClassOf 'GNU Copyleft Software License Type'
http://edamontology.org/topic_3536
Protein cleavage sites
'Protein cleavage sites' SubClassOf 'Protein sites, features and motifs'
'Protein cleavage sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3535
Protein-nucleic acid binding sites
'Protein-nucleic acid binding sites' SubClassOf 'Protein structural motifs and surfaces'
'Protein-nucleic acid binding sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3534
Protein binding sites
'Protein binding sites' SubClassOf 'Protein structural motifs and surfaces'
'Protein binding sites' SubClassOf 'Protein sites, features and motifs'
http://edamontology.org/topic_3533
Protein active sites
'Protein active sites' SubClassOf 'Protein structural motifs and surfaces'
'Protein active sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3539
Protein domains
'Protein domains' SubClassOf 'Protein domains and folds'
'Protein domains' SubClassOf 'Protein sites, features and motifs'
'Protein domains' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3538
Protein disordered structure
'Protein disordered structure' SubClassOf 'Protein sites, features and motifs'
'Protein disordered structure' SubClassOf 'Protein structure analysis'
http://edamontology.org/topic_3537
Protein chemical modifications
'Protein chemical modifications' SubClassOf 'Protein sites, features and motifs'
'Protein chemical modifications' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000125
'DEDS'
''DEDS'' SubClassOf 'is encoded in' some 'R language'
''DEDS'' SubClassOf 'is executed in' some 'differential expression analysis'
''DEDS'' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
''DEDS'' SubClassOf 'implements' some ''FDR''
''DEDS'' SubClassOf 'software'
''DEDS'' SubClassOf 'implements' some ''t-test''
''DEDS'' SubClassOf 'implements' some 'SAM'
''DEDS'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''DEDS'' SubClassOf 'is executed in' some 'descriptive statistical calculation'
''DEDS'' SubClassOf 'implements' some 'FC'
''DEDS'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000126
'DFP'
''DFP'' SubClassOf 'is executed in' some 'differential expression analysis'
''DFP'' SubClassOf 'is encoded in' some 'R language'
''DFP'' SubClassOf 'software'
''DFP'' SubClassOf 'implements' some 'Discriminant Fuzzy Pattern Algorithm'
''DFP'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''DFP'' SubClassOf 'has specified data input' some
('CSV data set' and ('has format specification' some 'Textual format'))
''DFP'' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/license/SWO_9000080
lGPL
'lGPL' SubClassOf 'software license'
'lGPL' SubClassOf 'GNU Project Free Software License Type'
'lGPL' SubClassOf 'License without restrictions on derivatives'
http://www.ebi.ac.uk/efo/swo/SWO_0000124
Cyber-T
'Cyber-T' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'UC Irvine'))
http://edamontology.org/topic_3543
Protein sequence repeats
'Protein sequence repeats' SubClassOf 'Protein sites, features and motifs'
'Protein sequence repeats' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000121
CodeLink Expression Analysis Software
'CodeLink Expression Analysis Software' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Motorola Life Sciences'))
http://www.ebi.ac.uk/swo/license/SWO_9000086
LPPL
'LPPL' SubClassOf 'has clause' some 'Distribution unrestricted'
'LPPL' SubClassOf 'has clause' some 'Source code available'
'LPPL' SubClassOf 'software license'
'LPPL' SubClassOf 'has clause' some 'No restrictions on derivatives'
'LPPL' SubClassOf 'GNU Project Free Software License Type'
http://edamontology.org/format_1935
GCG
'GCG' SubClassOf 'Textual format'
http://edamontology.org/topic_3542
Protein secondary structure
'Protein secondary structure' SubClassOf 'Protein sites, features and motifs'
http://www.ebi.ac.uk/efo/swo/SWO_0000122
CodeLink Expression Scanning Software
'CodeLink Expression Scanning Software' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Motorola Life Sciences'))
http://www.ebi.ac.uk/swo/license/SWO_9000087
OPL v1.0
'OPL v1.0' SubClassOf 'has clause' some 'derivative software allowed'
'OPL v1.0' SubClassOf 'software license'
'OPL v1.0' SubClassOf 'has clause' some 'Distribution restricted'
'OPL v1.0' SubClassOf 'has clause' some 'Source code available'
'OPL v1.0' SubClassOf 'Open source software license'
http://edamontology.org/topic_3541
Protein post-translational modifications
'Protein post-translational modifications' SubClassOf 'Protein sites, features and motifs'
'Protein post-translational modifications' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_9000084
EPL v1
'EPL v1' SubClassOf 'has clause' some 'Source code available'
'EPL v1' SubClassOf 'software license'
'EPL v1' SubClassOf 'has clause' some
('Distribution unrestricted' or 'Distribution with notices')
'EPL v1' SubClassOf 'has clause' some 'derivative code same license'
'EPL v1' SubClassOf 'GNU Project Free Software License Type'
http://edamontology.org/topic_3540
Protein key folding sites
'Protein key folding sites' SubClassOf 'Protein folding, stability and design'
'Protein key folding sites' SubClassOf 'Protein sites, features and motifs'
'Protein key folding sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000120
'CoCiteStats'
''CoCiteStats'' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
''CoCiteStats'' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
''CoCiteStats'' SubClassOf 'is executed in' some 'descriptive statistical calculation'
''CoCiteStats'' SubClassOf 'implements' some 'Concordance'
''CoCiteStats'' SubClassOf 'is encoded in' some 'R language'
''CoCiteStats'' SubClassOf 'software'
''CoCiteStats'' SubClassOf 'implements' some 'Hubert’s gamma'
''CoCiteStats'' SubClassOf 'implements' some 'Jaccard’s index'
''CoCiteStats'' SubClassOf 'R software'
http://www.ebi.ac.uk/swo/license/SWO_9000085
Modified BSD
'Modified BSD' SubClassOf 'is compatible license of' some 'GNU GPL v3'
'Modified BSD' SubClassOf 'is compatible license of' some 'GNU GPL v2'
'Modified BSD' SubClassOf 'has clause' some 'Source code available'
'Modified BSD' SubClassOf 'has clause' some 'Distribution with notices'
'Modified BSD' SubClassOf 'software license'
'Modified BSD' SubClassOf 'GNU Copyleft Software License Type'
http://edamontology.org/topic_3544
Protein signal peptides
'Protein signal peptides' SubClassOf 'Protein sites, features and motifs'
'Protein signal peptides' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000134
'EBarrays'
''EBarrays'' SubClassOf 'software'
''EBarrays'' SubClassOf 'implements' some 'Lognormal Normal with Modied Variance Model'
''EBarrays'' SubClassOf 'implements' some 'Empirical Bayes rule'
''EBarrays'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''EBarrays'' SubClassOf 'is encoded in' some 'R language'
''EBarrays'' SubClassOf 'implements' some 'Gamma Gamma Model'
''EBarrays'' SubClassOf 'has specified data input' some
('Gene expression data' and ('has format specification' some 'R data frame'))
''EBarrays'' SubClassOf 'implements' some 'Lognormal Normal Model'
''EBarrays'' SubClassOf 'is executed in' some 'differential expression analysis'
''EBarrays'' SubClassOf 'has specified data output' some
('Clustered data set' and ('has format specification' some 'data format specification'))
''EBarrays'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000132
'DynDoc'
''DynDoc'' SubClassOf 'is encoded in' some 'R language'
''DynDoc'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'Rnw'))
''DynDoc'' SubClassOf 'software'
''DynDoc'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000133
'EBImage'
''EBImage'' SubClassOf 'software'
''EBImage'' SubClassOf 'is encoded in' some 'R language'
''EBImage'' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
''EBImage'' SubClassOf 'has specified data input' some
('Image' and ('has format specification' some 'CEL binary format'))
''EBImage'' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
''EBImage'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000130
'DNAcopy'
''DNAcopy'' SubClassOf 'software'
''DNAcopy'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
''DNAcopy'' SubClassOf 'is encoded in' some 'R language'
''DNAcopy'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''DNAcopy'' SubClassOf 'R software'
http://edamontology.org/format_1965
treecon sequence format
'treecon sequence format' SubClassOf 'Obsolete concept (EDAM)'
'treecon sequence format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1964
plain text format (unformatted)
'plain text format (unformatted)' SubClassOf 'Sequence record format (text)'
http://edamontology.org/topic_2226
Structure determination
'Structure determination' SubClassOf 'Obsolete concept (EDAM)'
'Structure determination' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2225
Protein databases
'Protein databases' SubClassOf 'Obsolete concept (EDAM)'
'Protein databases' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000138
Expert 2100
'Expert 2100' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Agilent Technologies'))
'Expert 2100' SubClassOf 'software'
'Expert 2100' SubClassOf 'Agilent Technologies Software'
http://edamontology.org/topic_2230
Classification
'Classification' SubClassOf 'Obsolete concept (EDAM)'
'Classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000147
Agilent Feature Extraction Software
'Agilent Feature Extraction Software' SubClassOf 'software'
'Agilent Feature Extraction Software' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Agilent Technologies'))
'Agilent Feature Extraction Software' SubClassOf 'is executed in' some 'feature extraction'
'Agilent Feature Extraction Software' SubClassOf 'Agilent Technologies Software'
http://edamontology.org/topic_2232
Lipoproteins
'Lipoproteins' SubClassOf 'Obsolete concept (EDAM)'
'Lipoproteins' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1959
selex sequence format
'selex sequence format' SubClassOf 'Obsolete concept (EDAM)'
'selex sequence format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1956
phylipnon sequence format
'phylipnon sequence format' SubClassOf 'Obsolete concept (EDAM)'
'phylipnon sequence format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1955
phylip sequence format
'phylip sequence format' SubClassOf 'Obsolete concept (EDAM)'
'phylip sequence format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000158
GEOmetadb
'GEOmetadb' SubClassOf 'software'
'GEOmetadb' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GEOmetadb' SubClassOf 'is encoded in' some 'R language'
'GEOmetadb' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000159
GEOquery
'GEOquery' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GEOquery' SubClassOf 'software'
'GEOquery' SubClassOf 'is encoded in' some 'R language'
'GEOquery' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000154
GC-RMA Quantification
'GC-RMA Quantification' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Agilent Technologies'))
'GC-RMA Quantification' SubClassOf 'software'
'GC-RMA Quantification' SubClassOf 'Agilent Technologies Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000155
GEMTools 2.4
'GEMTools 2.4' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Incyte Genomics'))
http://www.ebi.ac.uk/efo/swo/SWO_0000152
GACK
'GACK' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Stanford University'))
http://www.ebi.ac.uk/efo/swo/SWO_0000168
GOstats
'GOstats' SubClassOf 'implements' some 'Hypergeometric probability'
'GOstats' SubClassOf 'is encoded in' some 'R language'
'GOstats' SubClassOf 'software'
'GOstats' SubClassOf 'has specified data output' some
('HTML report' and ('has format specification' some 'HTML'))
'GOstats' SubClassOf 'implements' some ''t-test''
'GOstats' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'GOstats' SubClassOf 'is executed in' some 'differential expression analysis'
'GOstats' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GOstats' SubClassOf 'has specified data output' some
('Gene expression data' and ('has format specification' some 'data format specification'))
'GOstats' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000166
GLEAMS software
'GLEAMS software' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Molecular Neuroscience Core, Center for Behavioral Neuroscience, Atlanta'))
http://www.ebi.ac.uk/efo/swo/SWO_0000163
GGtools
'GGtools' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'rda'))
'GGtools' SubClassOf 'is encoded in' some 'R language'
'GGtools' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
'GGtools' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GGtools' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GGtools' SubClassOf 'software'
'GGtools' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000164
GLAD
'GLAD' SubClassOf 'implements' some 'Modified version of the GLAD algorithm (Gain and Loss Analysis of DNA)'
'GLAD' SubClassOf 'is encoded in' some 'R language'
'GLAD' SubClassOf 'software'
'GLAD' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'GLAD' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GLAD' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000161
GGBase
'GGBase' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GGBase' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'rda'))
'GGBase' SubClassOf 'software'
'GGBase' SubClassOf 'is encoded in' some 'R language'
'GGBase' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GGBase' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
'GGBase' SubClassOf 'R software'
http://edamontology.org/topic_2258
Cheminformatics
'Cheminformatics' SubClassOf 'Computer science'
'Cheminformatics' SubClassOf 'Chemistry'
'Cheminformatics' SubClassOf 'Informatics'
http://edamontology.org/topic_2257
Phylogeny visualisation
'Phylogeny visualisation' SubClassOf 'Obsolete concept (EDAM)'
'Phylogeny visualisation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1929
FASTA
FASTA format
'FASTA format' SubClassOf 'Textual format'
http://www.ebi.ac.uk/efo/swo/SWO_0000176
Gene Pix
'Gene Pix' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Molecular Devices'))
http://edamontology.org/format_1924
clustal sequence format
'clustal sequence format' SubClassOf 'Obsolete concept (EDAM)'
'clustal sequence format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000175
GeneData Expressionist Analyst v4.0.5
'GeneData Expressionist Analyst v4.0.5' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Genedata'))
http://www.ebi.ac.uk/efo/swo/SWO_0000170
GSEABase
'GSEABase' SubClassOf 'software'
'GSEABase' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GSEABase' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'XML'))
'GSEABase' SubClassOf 'is encoded in' some 'R language'
'GSEABase' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GSEABase' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000171
GSEAlm
'GSEAlm' SubClassOf 'software'
'GSEAlm' SubClassOf 'is executed in' some 'descriptive statistical calculation'
'GSEAlm' SubClassOf 'implements' some 'Gene-Set Enrichment Analysis'
'GSEAlm' SubClassOf 'implements' some 'Linear modelling'
'GSEAlm' SubClassOf 'is executed in' some 'gene expression analysis'
'GSEAlm' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
'GSEAlm' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GSEAlm' SubClassOf 'is encoded in' some 'R language'
'GSEAlm' SubClassOf 'R software'
http://edamontology.org/format_1921
Alignment format
'Alignment format' SubClassOf 'is format of' some 'Sequence alignment'
http://edamontology.org/format_1920
Sequence feature annotation format
'Sequence feature annotation format' SubClassOf 'is format of' some 'Sequence features'
http://edamontology.org/format_1918
Atomic data format
'Atomic data format' SubClassOf 'Obsolete concept (EDAM)'
'Atomic data format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000189
GeneRegionScan
'GeneRegionScan' SubClassOf 'software'
'GeneRegionScan' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'GeneRegionScan' SubClassOf 'is encoded in' some 'R language'
'GeneRegionScan' SubClassOf 'has specified data input' some
('Image' and ('has format specification' some 'CEL binary format'))
'GeneRegionScan' SubClassOf 'R software'
http://edamontology.org/format_1919
Sequence record format
'Sequence record format' SubClassOf 'is format of' some 'Sequence record'
http://edamontology.org/topic_2271
Structure database search
'Structure database search' SubClassOf 'Obsolete concept (EDAM)'
'Structure database search' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2278
Transmembrane protein prediction
'Transmembrane protein prediction' SubClassOf 'Obsolete concept (EDAM)'
'Transmembrane protein prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_2277
SNP
'SNP' SubClassOf 'DNA polymorphism'
'SNP' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000188
GeneR
'GeneR' SubClassOf 'is encoded in' some 'R language'
'GeneR' SubClassOf 'software'
'GeneR' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'FASTA format'))
'GeneR' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'GeneR' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GeneR' SubClassOf 'R software'
http://edamontology.org/topic_2276
Protein function prediction
'Protein function prediction' SubClassOf 'Obsolete concept (EDAM)'
'Protein function prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1831
Metal-bound cysteine detection
'Metal-bound cysteine detection' SubClassOf 'Residue interaction calculation'
http://edamontology.org/operation_0500
Secondary structure alignment generation
'Secondary structure alignment generation' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure alignment generation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1835
Residue contact calculation (residue-negative ion)
'Residue contact calculation (residue-negative ion)' SubClassOf 'Residue contact calculation'
'Residue contact calculation (residue-negative ion)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0504
Multiple structure alignment construction
'Multiple structure alignment construction' SubClassOf 'Obsolete concept (EDAM)'
'Multiple structure alignment construction' SubClassOf 'Structure alignment'
http://edamontology.org/operation_1834
Residue contact calculation (residue-metal)
'Residue contact calculation (residue-metal)' SubClassOf 'Residue contact calculation'
'Residue contact calculation (residue-metal)' SubClassOf 'Protein binding site prediction (from structure)'
'Residue contact calculation (residue-metal)' SubClassOf 'Residue interaction calculation'
http://edamontology.org/operation_0501
Protein secondary structure alignment generation
'Protein secondary structure alignment generation' SubClassOf 'has output' some 'Secondary structure alignment (protein)'
http://www.ebi.ac.uk/efo/swo/SWO_0000196
GeneTraffic
'GeneTraffic' SubClassOf 'is encoded in' some 'R language'
'GeneTraffic' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GeneTraffic' SubClassOf 'software'
'GeneTraffic' SubClassOf 'R software'
http://edamontology.org/operation_0502
RNA secondary structure alignment
'RNA secondary structure alignment' SubClassOf 'has input' some 'RNA secondary structure'
'RNA secondary structure alignment' SubClassOf 'has output' some 'Secondary structure alignment (RNA)'
http://edamontology.org/operation_1832
Residue contact calculation (residue-nucleic acid)
'Residue contact calculation (residue-nucleic acid)' SubClassOf 'Protein structural motif recognition'
'Residue contact calculation (residue-nucleic acid)' SubClassOf 'Residue contact calculation'
'Residue contact calculation (residue-nucleic acid)' SubClassOf 'Protein-nucleic acid binding site analysis'
'Residue contact calculation (residue-nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000195
GeneTac Analyser
'GeneTac Analyser' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Applied Biosystems'))
http://www.ebi.ac.uk/efo/swo/SWO_0000192
GeneSelector
'GeneSelector' SubClassOf 'implements' some 'Wilcoxon'
'GeneSelector' SubClassOf 'implements' some 'Linear modelling'
'GeneSelector' SubClassOf 'implements' some 'WilcEbam'
'GeneSelector' SubClassOf 'implements' some 'BaldiLongT'
'GeneSelector' SubClassOf 'software'
'GeneSelector' SubClassOf 'implements' some ''t-test''
'GeneSelector' SubClassOf 'implements' some 'Bayesian Model'
'GeneSelector' SubClassOf 'implements' some 'SAM'
'GeneSelector' SubClassOf 'is encoded in' some 'R language'
'GeneSelector' SubClassOf 'implements' some 'FoxDimmicT'
'GeneSelector' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000193
GeneSpring
'GeneSpring' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GeneSpring' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'data format specification'))
'GeneSpring' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Agilent Technologies'))
'GeneSpring' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Strand Life Sciences'))
'GeneSpring' SubClassOf 'is encoded in' some 'R language'
'GeneSpring' SubClassOf 'software'
'GeneSpring' SubClassOf 'Agilent Technologies Software'
'GeneSpring' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000190
GeneRfold
'GeneRfold' SubClassOf 'software'
'GeneRfold' SubClassOf 'is encoded in' some 'R language'
'GeneRfold' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'GeneRfold' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'PostScript'))
'GeneRfold' SubClassOf 'R software'
http://edamontology.org/topic_2280
Nucleic acid structure comparison
'Nucleic acid structure comparison' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid structure comparison' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000191
GeneSelectMMD
'GeneSelectMMD' SubClassOf 'is executed in' some 'differential expression analysis'
'GeneSelectMMD' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
'GeneSelectMMD' SubClassOf 'is encoded in' some 'R language'
'GeneSelectMMD' SubClassOf 'software'
'GeneSelectMMD' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'GeneSelectMMD' SubClassOf 'implements' some 'MMD'
'GeneSelectMMD' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
'GeneSelectMMD' SubClassOf 'R software'
http://edamontology.org/operation_1828
Tau angle calculation
'Tau angle calculation' SubClassOf 'Torsion angle calculation'
'Tau angle calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1827
Cysteine torsion angle calculation
'Cysteine torsion angle calculation' SubClassOf 'Torsion angle calculation'
'Cysteine torsion angle calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1826
Full torsion angle calculation
'Full torsion angle calculation' SubClassOf 'Torsion angle calculation'
'Full torsion angle calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1825
Backbone torsion angle calculation
'Backbone torsion angle calculation' SubClassOf 'Torsion angle calculation'
'Backbone torsion angle calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1842
Proline mutation value calculation
'Proline mutation value calculation' SubClassOf 'Protein modelling (mutation)'
'Proline mutation value calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0511
Profile-to-profile alignment (pairwise)
'Profile-to-profile alignment (pairwise)' SubClassOf 'Profile-to-profile alignment'
'Profile-to-profile alignment (pairwise)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1841
Rotamer likelihood prediction
'Rotamer likelihood prediction' SubClassOf 'Protein modelling (side chains)'
'Rotamer likelihood prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0514
Structural profile alignment generation (multiple)
'Structural profile alignment generation (multiple)' SubClassOf 'Obsolete concept (EDAM)'
'Structural profile alignment generation (multiple)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1846
HET group detection
'HET group detection' SubClassOf 'Residue contact calculation (residue-ligand)'
'HET group detection' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0515
Data retrieval (tool metadata)
'Data retrieval (tool metadata)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (tool metadata)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1845
PDB file sequence retrieval
'PDB file sequence retrieval' SubClassOf 'Obsolete concept (EDAM)'
'PDB file sequence retrieval' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0512
Sequence alignment generation (multiple profile)
'Sequence alignment generation (multiple profile)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment generation (multiple profile)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0513
3D profile-to-3D profile alignment (pairwise)
'3D profile-to-3D profile alignment (pairwise)' SubClassOf '3D profile-to-3D profile alignment'
'3D profile-to-3D profile alignment (pairwise)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1843
Residue packing validation
'Residue packing validation' SubClassOf 'Residue non-canonical interaction detection'
'Residue packing validation' SubClassOf 'Protein model validation'
http://edamontology.org/operation_0507
Pairwise structure alignment generation (local)
'Pairwise structure alignment generation (local)' SubClassOf 'Obsolete concept (EDAM)'
'Pairwise structure alignment generation (local)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1839
Salt bridge calculation
'Salt bridge calculation' SubClassOf 'Residue contact calculation (residue-residue)'
'Salt bridge calculation' SubClassOf 'Residue interaction calculation'
http://edamontology.org/operation_0508
Pairwise structure alignment generation (global)
'Pairwise structure alignment generation (global)' SubClassOf 'Obsolete concept (EDAM)'
'Pairwise structure alignment generation (global)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1838
Residue contact calculation (residue-ligand)
'Residue contact calculation (residue-ligand)' SubClassOf 'Protein binding site prediction (from structure)'
'Residue contact calculation (residue-ligand)' SubClassOf 'Residue contact calculation'
'Residue contact calculation (residue-ligand)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0505
Structure alignment (protein)
'Structure alignment (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1837
Residue symmetry contact calculation
'Residue symmetry contact calculation' SubClassOf 'Residue contact calculation (residue-residue)'
'Residue symmetry contact calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0506
Structure alignment (RNA)
'Structure alignment (RNA)' SubClassOf 'Obsolete concept (EDAM)'
'Structure alignment (RNA)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1836
Residue bump detection
'Residue bump detection' SubClassOf 'Residue non-canonical interaction detection'
'Residue bump detection' SubClassOf 'Protein model validation'
http://edamontology.org/operation_1813
Sequence retrieval
'Sequence retrieval' SubClassOf 'Obsolete concept (EDAM)'
'Sequence retrieval' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1812
Loading
'Loading' SubClassOf 'has input' some 'Identifier'
http://edamontology.org/operation_1820
Protein residue surface calculation (vacuum accessible)
'Protein residue surface calculation (vacuum accessible)' SubClassOf 'Protein residue surface calculation'
'Protein residue surface calculation (vacuum accessible)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1824
Protein surface calculation (accessible)
'Protein surface calculation (accessible)' SubClassOf 'Protein surface calculation'
'Protein surface calculation (accessible)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1823
Protein surface calculation (accessible molecular)
'Protein surface calculation (accessible molecular)' SubClassOf 'Protein surface calculation'
'Protein surface calculation (accessible molecular)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1822
Protein residue surface calculation (vacuum molecular)
'Protein residue surface calculation (vacuum molecular)' SubClassOf 'Protein residue surface calculation'
'Protein residue surface calculation (vacuum molecular)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1821
Protein residue surface calculation (accessible molecular)
'Protein residue surface calculation (accessible molecular)' SubClassOf 'Protein residue surface calculation'
'Protein residue surface calculation (accessible molecular)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1817
Protein atom surface calculation (accessible)
'Protein atom surface calculation (accessible)' SubClassOf 'Protein atom surface calculation'
'Protein atom surface calculation (accessible)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1816
Surface rendering
'Surface rendering' SubClassOf 'Protein surface calculation'
'Surface rendering' SubClassOf 'Protein surface analysis'
http://edamontology.org/operation_1814
Structure retrieval
'Structure retrieval' SubClassOf 'Obsolete concept (EDAM)'
'Structure retrieval' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1819
Protein residue surface calculation (accessible)
'Protein residue surface calculation (accessible)' SubClassOf 'Protein residue surface calculation'
'Protein residue surface calculation (accessible)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1818
Protein atom surface calculation (accessible molecular)
'Protein atom surface calculation (accessible molecular)' SubClassOf 'Protein atom surface calculation'
'Protein atom surface calculation (accessible molecular)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0543
Phylogenetic tree construction (from polymorphism data)
'Phylogenetic tree construction (from polymorphism data)' SubClassOf 'has topic' some 'Genetic variation'
http://edamontology.org/operation_0541
Phylogenetic tree generation (from continuous quantitative characters)
'Phylogenetic tree generation (from continuous quantitative characters)' SubClassOf 'has input' some 'Phylogenetic continuous quantitative data'
http://edamontology.org/operation_0542
Phylogenetic tree generation (from gene frequencies)
'Phylogenetic tree generation (from gene frequencies)' SubClassOf 'has topic' some 'Gene expression'
'Phylogenetic tree generation (from gene frequencies)' SubClassOf 'has input' some 'Phylogenetic gene frequencies data'
http://edamontology.org/format_1981
GenBank feature
'GenBank feature' SubClassOf 'Obsolete concept (EDAM)'
'GenBank feature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1980
EMBL feature
'EMBL feature' SubClassOf 'Obsolete concept (EDAM)'
'EMBL feature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0553
Phylogenetic tree analysis (gene family prediction)
'Phylogenetic tree analysis (gene family prediction)' SubClassOf 'has output' some 'Gene report'
'Phylogenetic tree analysis (gene family prediction)' SubClassOf 'has topic' some 'Phylogenomics'
http://edamontology.org/operation_0559
Immunogenicity prediction
'Immunogenicity prediction' SubClassOf 'Peptide immunogenicity prediction'
'Immunogenicity prediction' SubClassOf 'has topic' some 'Immunology'
'Immunogenicity prediction' SubClassOf 'has topic' some 'Protein folding, stability and design'
'Immunogenicity prediction' SubClassOf 'has output' some 'Protein structure'
'Immunogenicity prediction' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0557
Phylogenetic tree distances calculation
'Phylogenetic tree distances calculation' SubClassOf 'has output' some 'Phylogenetic tree distances'
http://edamontology.org/operation_0550
DNA substitution modelling
'DNA substitution modelling' SubClassOf 'has output' some 'DNA substitution model'
'DNA substitution modelling' SubClassOf 'has topic' some 'Phylogeny'
http://edamontology.org/format_1976
pir
'pir' SubClassOf 'Obsolete concept (EDAM)'
'pir' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1977
swiss feature
'swiss feature' SubClassOf 'Obsolete concept (EDAM)'
'swiss feature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1971
meganon sequence format
'meganon sequence format' SubClassOf 'Obsolete concept (EDAM)'
'meganon sequence format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0521
PCR primer design (based on gene structure)
'PCR primer design (based on gene structure)' SubClassOf 'PCR primer design'
'PCR primer design (based on gene structure)' SubClassOf 'has topic' some 'Gene structure'
'PCR primer design (based on gene structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0522
PCR primer design (for methylation PCRs)
'PCR primer design (for methylation PCRs)' SubClassOf 'PCR primer design'
'PCR primer design (for methylation PCRs)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0520
PCR primer design (for conserved primers)
'PCR primer design (for conserved primers)' SubClassOf 'PCR primer design'
'PCR primer design (for conserved primers)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1850
Protein cysteine and disulfide bond assignment
'Protein cysteine and disulfide bond assignment' SubClassOf 'has topic' some 'Protein folding, stability and design'
http://edamontology.org/operation_0518
PCR primer design (for genotyping polymorphisms)
'PCR primer design (for genotyping polymorphisms)' SubClassOf 'PCR primer design'
'PCR primer design (for genotyping polymorphisms)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0519
PCR primer design (for gene transcription profiling)
'PCR primer design (for gene transcription profiling)' SubClassOf 'has topic' some 'Gene expression'
'PCR primer design (for gene transcription profiling)' SubClassOf 'PCR primer design'
'PCR primer design (for gene transcription profiling)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0516
Data retrieval (database metadata)
'Data retrieval (database metadata)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (database metadata)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1848
Structure formatting
'Structure formatting' SubClassOf 'Formatting'
'Structure formatting' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_9000088
MPL
'MPL' SubClassOf 'software license'
'MPL' SubClassOf 'has clause' some 'Distribution with notices'
'MPL' SubClassOf 'has clause' some 'Source code available'
'MPL' SubClassOf 'Open source software license'
http://edamontology.org/operation_0517
PCR primer design (for large scale sequencing)
'PCR primer design (for large scale sequencing)' SubClassOf 'has topic' some 'Sequencing'
'PCR primer design (for large scale sequencing)' SubClassOf 'PCR primer design'
'PCR primer design (for large scale sequencing)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1847
DSSP secondary structure assignment
'DSSP secondary structure assignment' SubClassOf 'Obsolete concept (EDAM)'
'DSSP secondary structure assignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2528
Molecular data
'Molecular data' SubClassOf 'Obsolete concept (EDAM)'
'Molecular data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0532
Gene expression profile analysis
'Gene expression profile analysis' SubClassOf 'Obsolete concept (EDAM)'
'Gene expression profile analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2529
Molecule report
'Molecule report' SubClassOf 'Obsolete concept (EDAM)'
'Molecule report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0533
Gene expression profile pathway mapping
'Gene expression profile pathway mapping' SubClassOf 'has output' some 'Pathway or network report'
http://edamontology.org/operation_0530
SBS data processing
'SBS data processing' SubClassOf 'Obsolete concept (EDAM)'
'SBS data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0531
Heat map generation
'Heat map generation' SubClassOf 'has output' some 'Heatmap'
http://edamontology.org/data_2524
Protein data
'Protein data' SubClassOf 'Obsolete concept (EDAM)'
'Protein data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0536
Protein structure assignment (from X-ray crystallographic data)
'Protein structure assignment (from X-ray crystallographic data)' SubClassOf 'Obsolete concept (EDAM)'
'Protein structure assignment (from X-ray crystallographic data)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2525
Nucleic acid data
'Nucleic acid data' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0537
Protein structure assignment (from NMR data)
'Protein structure assignment (from NMR data)' SubClassOf 'Obsolete concept (EDAM)'
'Protein structure assignment (from NMR data)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2526
Article data
'Article data' SubClassOf 'data'
'Article data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2527
Parameter
'Parameter' SubClassOf 'data'
'Identifier' DisjointWith 'Parameter'
'Parameter' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0535
Protein secondary structure assignment (from CD data)
'Protein secondary structure assignment (from CD data)' SubClassOf 'has input' some 'Protein circular dichroism (CD) spectroscopic data'
http://edamontology.org/data_2522
Map data
'Map data' SubClassOf 'Obsolete concept (EDAM)'
'Map data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2523
Phylogenetic data
'Phylogenetic data' SubClassOf 'data'
'Phylogenetic data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/operation_0529
MPSS data processing
'MPSS data processing' SubClassOf 'Obsolete concept (EDAM)'
'MPSS data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_0527
Tag mapping
'Tag mapping' SubClassOf 'has output' some 'Sequence tag profile (with gene assignment)'
http://edamontology.org/operation_0528
SAGE data processing
'SAGE data processing' SubClassOf 'Obsolete concept (EDAM)'
'SAGE data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1994
nexus alignment format
'nexus alignment format' SubClassOf 'Obsolete concept (EDAM)'
'nexus alignment format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1993
msf alignment format
'msf alignment format' SubClassOf 'Obsolete concept (EDAM)'
'msf alignment format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1995
nexusnon alignment format
'nexusnon alignment format' SubClassOf 'Obsolete concept (EDAM)'
'nexusnon alignment format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1328
Protein features report (nucleic acid binding sites)
'Protein features report (nucleic acid binding sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (nucleic acid binding sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2403
Sequence analysis
'Sequence analysis' SubClassOf 'Operation (typed)'
'Sequence analysis' SubClassOf 'has topic' some 'Sequence analysis'
'Sequence analysis' SubClassOf 'Analysis'
http://www.ebi.ac.uk/swo/SWO_0000077
Sequence Alignment and Modeling System
'Sequence Alignment and Modeling System' SubClassOf 'is executed in' some 'multiple sequence alignment'
http://edamontology.org/data_1327
Protein features (epitopes)
'Protein features (epitopes)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features (epitopes)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000076
SPSS 20.0
'SPSS 20.0' SubClassOf 'has download location' value "http://www-01.ibm.com/software/uk/analytics/spss/downloads.html"
'SPSS 20.0' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'IBM'))
http://edamontology.org/data_1326
Protein features report (binding sites)
'Protein features report (binding sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (binding sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000079
Cytoscape
'Cytoscape' SubClassOf 'is executed in' some 'data visualization task'
'Cytoscape' SubClassOf 'has specified data input' only 'Interaction data'
'Cytoscape' SubClassOf 'has documentation' value "http://dx.doi.org/10.1101/gr.1239303"
http://edamontology.org/data_1325
Protein features report (active sites)
'Protein features report (active sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (active sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000078
SAM 3.5
'SAM 3.5' SubClassOf 'implements' some 'Hidden Markov Model'
'SAM 3.5' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'UC Santa Cruz Computational Biology Group '))
http://edamontology.org/operation_2407
Annotation processing
'Annotation processing' SubClassOf 'Obsolete concept (EDAM)'
'Annotation processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2406
Protein structure analysis
'Protein structure analysis' SubClassOf 'has topic' some 'Protein structure analysis'
'Protein structure analysis' SubClassOf 'has input' some 'Protein structure'
http://edamontology.org/operation_2405
Protein interaction data processing
'Protein interaction data processing' SubClassOf 'Obsolete concept (EDAM)'
'Protein interaction data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1329
MHC Class I epitopes report
'MHC Class I epitopes report' SubClassOf 'Obsolete concept (EDAM)'
'MHC Class I epitopes report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2404
Sequence motif processing
'Sequence motif processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif processing' SubClassOf 'Sequence analysis'
http://www.ebi.ac.uk/swo/SWO_0000071
CRG PSICoffee Web Tool
'CRG PSICoffee Web Tool' SubClassOf 'has interface' some 'web user interface'
'CRG PSICoffee Web Tool' SubClassOf 'uses software' some 'CRG TCoffee 9.02.r1228'
'CRG PSICoffee Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Centre for Genomic Regulation (CRG) of Barcelona'))
'CRG PSICoffee Web Tool' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/nar/gkr245"
http://www.ebi.ac.uk/swo/SWO_0000070
CRG Expresso Web Tool
'CRG Expresso Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Centre for Genomic Regulation (CRG) of Barcelona'))
'CRG Expresso Web Tool' SubClassOf 'has interface' some 'web user interface'
'CRG Expresso Web Tool' SubClassOf 'uses software' some 'CRG TCoffee 9.02.r1228'
'CRG Expresso Web Tool' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/nar/gkl092"
http://edamontology.org/data_1324
Protein features (post-translation modifications)
'Protein features (post-translation modifications)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features (post-translation modifications)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000073
Q
'Q' SubClassOf 'is executed in' some 'data processing task'
'Q' SubClassOf 'has interface' some 'graphical user interface'
'Q' SubClassOf 'is executed in' some 'data visualization task'
http://edamontology.org/data_1323
Protein features report (cleavage sites)
'Protein features report (cleavage sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (cleavage sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000072
CRG TCoffee 9.02.r1228
'CRG TCoffee 9.02.r1228' SubClassOf 'has version' value 'CRG TCoffee version 9.02.r1228'
'CRG TCoffee 9.02.r1228' SubClassOf 'has interface' some 'graphical user interface'
'CRG TCoffee 9.02.r1228' SubClassOf 'has interface' some 'command-line interface'
'CRG TCoffee 9.02.r1228' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Centre for Genomic Regulation (CRG) of Barcelona'))
'CRG TCoffee 9.02.r1228' SubClassOf 'software with command line interface'
http://edamontology.org/data_1322
Protein features report (signal peptides)
'Protein features report (signal peptides)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (signal peptides)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000075
SPSS
'SPSS' SubClassOf 'is executed in' some 'data visualization task'
'SPSS' SubClassOf 'has interface' some 'graphical user interface'
'SPSS' SubClassOf 'is executed in' some 'data processing task'
http://edamontology.org/data_1321
Protein features (sites)
'Protein features (sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features (sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000074
Q 4.2
'Q 4.2' SubClassOf 'has documentation' value "http://www.q-researchsoftware.com"
'Q 4.2' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Numbers International Pty Ltd'))
http://edamontology.org/format_2352
BioXSD
'BioXSD' SubClassOf 'is format of' some 'Sequence alignment'
'BioXSD' SubClassOf 'is format of' some 'Sequence'
'BioXSD' SubClassOf 'is format of' some 'Sequence features'
http://edamontology.org/format_2350
Format (typed)
'Format (typed)' SubClassOf 'data format specification'
'Format (typed)' SubClassOf http://edamontology.org/format_1915
http://edamontology.org/data_1339
Sequence database hits alignments list
'Sequence database hits alignments list' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database hits alignments list' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2414
Protein function analysis
'Protein function analysis' SubClassOf 'has output' some 'Protein report'
http://edamontology.org/data_0007
Tool
'Tool' SubClassOf 'Obsolete concept (EDAM)'
'Tool' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1338
Sequence database hits scores list
'Sequence database hits scores list' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database hits scores list' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2413
Sequence profile processing
'Sequence profile processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence profile processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2412
Data index processing
'Data index processing' SubClassOf 'Obsolete concept (EDAM)'
'Data index processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0005
Resource type
'Resource type' SubClassOf 'Obsolete concept (EDAM)'
'Resource type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2411
Structural profile processing
'Structural profile processing' SubClassOf 'Obsolete concept (EDAM)'
'Structural profile processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2417
Physicochemical property data processing
'Physicochemical property data processing' SubClassOf 'Obsolete concept (EDAM)'
'Physicochemical property data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2416
Protein secondary structure analysis
'Protein secondary structure analysis' SubClassOf 'has output' some 'Protein secondary structure report'
'Protein secondary structure analysis' SubClassOf 'has topic' some 'Protein structure analysis'
http://edamontology.org/operation_2415
Protein folding analysis
'Protein folding analysis' SubClassOf 'has output' some 'Protein structure report'
'Protein folding analysis' SubClassOf 'has topic' some 'Protein folding, stability and design'
http://edamontology.org/data_1331
Protein features (PEST sites)
'Protein features (PEST sites)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features (PEST sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2663
Carbohydrate identifier
'Carbohydrate identifier' SubClassOf 'is identifier of' some 'Carbohydrate structure'
'Carbohydrate identifier' SubClassOf 'is identifier of' some 'Carbohydrate report'
http://www.ebi.ac.uk/swo/SWO_0000080
Cytoscape 2.8
'Cytoscape 2.8' SubClassOf 'has download location' value "http://www.cytoscape.org/download.html"
'Cytoscape 2.8' SubClassOf 'has specified data input' some
('Interaction data' and ('has format specification' some
('SBML' or 'PSI MI XML (MIF)' or 'SIF' or 'GML' or 'XGMML' or 'BioPAX RDF/XML format')))
http://edamontology.org/data_1330
MHC Class II epitopes report
'MHC Class II epitopes report' SubClassOf 'Obsolete concept (EDAM)'
'MHC Class II epitopes report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2410
Gene expression analysis
'Gene expression analysis' SubClassOf 'Obsolete concept (EDAM)'
'Gene expression analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2341
NCI-Nature pathway entry format
'NCI-Nature pathway entry format' SubClassOf 'Obsolete concept (EDAM)'
'NCI-Nature pathway entry format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2409
Utility operation
'Utility operation' SubClassOf 'information processing'
'Utility operation' SubClassOf 'has topic' some 'File management'
'Utility operation' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_2408
Sequence feature analysis
'Sequence feature analysis' SubClassOf 'Obsolete concept (EDAM)'
'Sequence feature analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1348
HMM emission and transition counts
'HMM emission and transition counts' SubClassOf 'Obsolete concept (EDAM)'
'HMM emission and transition counts' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2678
Ensembl ID ('Dasypus novemcinctus')
'Ensembl ID ('Dasypus novemcinctus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Dasypus novemcinctus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2679
Ensembl ID ('Echinops telfairi')
'Ensembl ID ('Echinops telfairi')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Echinops telfairi')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2674
Ensembl ID ('Cavia porcellus')
'Ensembl ID ('Cavia porcellus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Cavia porcellus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2675
Ensembl ID ('Ciona intestinalis')
'Ensembl ID ('Ciona intestinalis')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Ciona intestinalis')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000090
Gene Expression Atlas at EBI R statistics package
'Gene Expression Atlas at EBI R statistics package' SubClassOf 'has support URL' value "https://github.com/gxa/gxa/blob/develop/atlas-analytics/src/main/resources/R/analytics.R"
http://edamontology.org/data_1340
Sequence database hits evaluation data
'Sequence database hits evaluation data' SubClassOf 'Obsolete concept (EDAM)'
'Sequence database hits evaluation data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2676
Ensembl ID ('Ciona savignyi')
'Ensembl ID ('Ciona savignyi')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Ciona savignyi')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2677
Ensembl ID ('Danio rerio')
'Ensembl ID ('Danio rerio')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Danio rerio')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1346
MEME motifs directive file
'MEME motifs directive file' SubClassOf 'Obsolete concept (EDAM)'
'MEME motifs directive file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1345
MEME background frequencies file
'MEME background frequencies file' SubClassOf 'Obsolete concept (EDAM)'
'MEME background frequencies file' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2671
Ensembl ID (Homo sapiens)
'Ensembl ID (Homo sapiens)' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID (Homo sapiens)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1344
MEME motif alphabet
'MEME motif alphabet' SubClassOf 'Obsolete concept (EDAM)'
'MEME motif alphabet' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2672
Ensembl ID ('Bos taurus')
'Ensembl ID ('Bos taurus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Bos taurus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2673
Ensembl ID ('Canis familiaris')
'Ensembl ID ('Canis familiaris')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Canis familiaris')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2376
RDF format
'RDF format' SubClassOf 'XML'
'RDF format' SubClassOf http://edamontology.org/format_3748
http://edamontology.org/data_1359
Prosite protein pattern
'Prosite protein pattern' SubClassOf 'Obsolete concept (EDAM)'
'Prosite protein pattern' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1358
Prosite nucleotide pattern
'Prosite nucleotide pattern' SubClassOf 'Obsolete concept (EDAM)'
'Prosite nucleotide pattern' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2689
Ensembl ID ('Myotis lucifugus')
'Ensembl ID ('Myotis lucifugus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Myotis lucifugus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1353
Sequence motif
'Sequence motif' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/data_2685
Ensembl ID ('Loxodonta africana')
'Ensembl ID ('Loxodonta africana')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Loxodonta africana')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1352
Regular expression
'Regular expression' SubClassOf 'data'
'Regular expression' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2686
Ensembl ID ('Macaca mulatta')
'Ensembl ID ('Macaca mulatta')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Macaca mulatta')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2687
Ensembl ID ('Monodelphis domestica')
'Ensembl ID ('Monodelphis domestica')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Monodelphis domestica')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2688
Ensembl ID ('Mus musculus')
'Ensembl ID ('Mus musculus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Mus musculus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2681
Ensembl ID ('Felis catus')
'Ensembl ID ('Felis catus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Felis catus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2682
Ensembl ID ('Gallus gallus')
'Ensembl ID ('Gallus gallus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Gallus gallus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2683
Ensembl ID ('Gasterosteus aculeatus')
'Ensembl ID ('Gasterosteus aculeatus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Gasterosteus aculeatus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1354
Sequence profile
'Sequence profile' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
http://edamontology.org/data_2684
Ensembl ID ('Homo sapiens')
'Ensembl ID ('Homo sapiens')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Homo sapiens')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2680
Ensembl ID ('Erinaceus europaeus')
'Ensembl ID ('Erinaceus europaeus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Erinaceus europaeus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2447
Sequence processing (protein)
'Sequence processing (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence processing (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2446
Sequence processing
'Sequence processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2445
Protein interaction network processing
'Protein interaction network processing' SubClassOf 'Obsolete concept (EDAM)'
'Protein interaction network processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2444
Protein secondary structure processing
'Protein secondary structure processing' SubClassOf 'Obsolete concept (EDAM)'
'Protein secondary structure processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2448
Sequence processing (nucleic acid)
'Sequence processing (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence processing (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1364
Hidden Markov model
'Hidden Markov model' SubClassOf 'Mathematical model'
http://edamontology.org/data_2696
Ensembl ID ('Spermophilus tridecemlineatus')
'Ensembl ID ('Spermophilus tridecemlineatus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Spermophilus tridecemlineatus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2697
Ensembl ID ('Takifugu rubripes')
'Ensembl ID ('Takifugu rubripes')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Takifugu rubripes')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2698
Ensembl ID ('Tupaia belangeri')
'Ensembl ID ('Tupaia belangeri')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Tupaia belangeri')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2699
Ensembl ID ('Xenopus tropicalis')
'Ensembl ID ('Xenopus tropicalis')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Xenopus tropicalis')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1368
Domainatrix signature
'Domainatrix signature' SubClassOf 'Obsolete concept (EDAM)'
'Domainatrix signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2692
Ensembl ID ('Oryzias latipes')
'Ensembl ID ('Oryzias latipes')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Oryzias latipes')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2443
Phylogenetic tree processing
'Phylogenetic tree processing' SubClassOf 'has topic' some 'Phylogeny'
'Phylogenetic tree processing' SubClassOf 'Operation (typed)'
'Phylogenetic tree processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2693
Ensembl ID ('Otolemur garnettii')
'Ensembl ID ('Otolemur garnettii')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Otolemur garnettii')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2442
DNA structure prediction
'DNA structure prediction' SubClassOf 'has output' some 'DNA structure'
http://edamontology.org/data_2694
Ensembl ID ('Pan troglodytes')
'Ensembl ID ('Pan troglodytes')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Pan troglodytes')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2441
RNA structure prediction
'RNA structure prediction' SubClassOf 'has output' some 'RNA structure'
http://www.ebi.ac.uk/swo/SWO_0000031
Smultron
'Smultron' SubClassOf 'has declared status' some 'Latest release'
'Smultron' SubClassOf 'has website homepage' value "http://www.peterborgapps.com/smultron/"
'Smultron' SubClassOf 'has specified data input' some
('Ontology' and ('has format specification' some 'Textual format'))
'Smultron' SubClassOf 'has version' value '3.5.1'
'Smultron' SubClassOf 'is executed in' some 'text editing'
http://edamontology.org/data_2695
Ensembl ID ('Rattus norvegicus')
'Ensembl ID ('Rattus norvegicus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Rattus norvegicus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2440
Structure processing (RNA)
'Structure processing (RNA)' SubClassOf 'Obsolete concept (EDAM)'
'Structure processing (RNA)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000030
software with command line interface
'software with command line interface' EquivalentTo 'has interface' some 'command-line interface'
http://edamontology.org/data_2690
Ensembl ID ("Ornithorhynchus anatinus")
'Ensembl ID ("Ornithorhynchus anatinus")' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ("Ornithorhynchus anatinus")' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2691
Ensembl ID ('Oryctolagus cuniculus')
'Ensembl ID ('Oryctolagus cuniculus')' SubClassOf 'Obsolete concept (EDAM)'
'Ensembl ID ('Oryctolagus cuniculus')' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000044
BLAST+ 2.2.26
'BLAST+ 2.2.26' SubClassOf 'has download location' value "ftp://ftp.ncbi.nih.gov/blast/executables/"
'BLAST+ 2.2.26' SubClassOf 'has specified data input' some
('DNA nucleotide sequence' and ('has format specification' some 'GenBank format'))
'BLAST+ 2.2.26' SubClassOf 'has specified data input' some
('DNA nucleotide sequence' and ('has format specification' some 'FASTA format'))
'BLAST+ 2.2.26' SubClassOf 'has interface' some 'command-line interface'
'BLAST+ 2.2.26' SubClassOf 'has interface' some 'web user interface'
'BLAST+ 2.2.26' SubClassOf 'has version' value 'BLAST+ version 2.2.26'
'BLAST+ 2.2.26' SubClassOf 'software with command line interface'
http://edamontology.org/operation_2457
GPCR coupling selectivity prediction
'GPCR coupling selectivity prediction' SubClassOf 'has output' some 'Protein report'
http://edamontology.org/operation_2456
GPCR classification
'GPCR classification' SubClassOf 'has output' some 'Protein family report'
'GPCR classification' SubClassOf 'Sequence classification'
'GPCR classification' SubClassOf 'GPCR analysis'
'GPCR classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2459
Structure processing (protein)
'Structure processing (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Structure processing (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1375
Protein repeat signature
'Protein repeat signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein repeat signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1374
Protein region signature
'Protein region signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein region signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1373
Protein domain signature
'Protein domain signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein domain signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1372
Protein family signature
'Protein family signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein family signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1379
Protein binding site signature
'Protein binding site signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein binding site signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2454
Gene prediction
'Gene prediction' SubClassOf 'has topic' some 'Gene structure'
'Gene prediction' SubClassOf 'has output' some 'Gene report'
http://edamontology.org/data_1378
Protein active site signature
'Protein active site signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein active site signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2453
Feature table processing
'Feature table processing' SubClassOf 'Obsolete concept (EDAM)'
'Feature table processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1377
Protein conserved site signature
'Protein conserved site signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein conserved site signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2452
Sequence cluster processing
'Sequence cluster processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence cluster processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1376
Protein site signature
'Protein site signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein site signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2451
Sequence comparison
'Sequence comparison' SubClassOf 'has input' some 'Sequence'
'Sequence comparison' SubClassOf 'has output' some 'Sequence report'
'Sequence comparison' SubClassOf 'has topic' some 'Sequence comparison'
http://edamontology.org/data_1371
HMMER NULL hidden Markov model
'HMMER NULL hidden Markov model' SubClassOf 'Obsolete concept (EDAM)'
'HMMER NULL hidden Markov model' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2303
STRING entry format (HTML)
'STRING entry format (HTML)' SubClassOf 'Obsolete concept (EDAM)'
'STRING entry format (HTML)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2425
Optimisation and refinement
'Optimisation and refinement' SubClassOf 'Analysis'
'Optimisation and refinement' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000055
Clustal Omega 1.1
'Clustal Omega 1.1' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Conway Institute UCD Dublin'))
'Clustal Omega 1.1' SubClassOf 'has interface' only 'command-line interface'
'Clustal Omega 1.1' SubClassOf 'has documentation' value "http://dx.doi.org/10.1038/msb.2011.75"
'Clustal Omega 1.1' SubClassOf 'has version' value 'Clustal Omega version 1.1'
http://edamontology.org/operation_2424
Comparison
'Comparison' SubClassOf 'Analysis'
'Comparison' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/operation_2423
Prediction and recognition
'Prediction and recognition' SubClassOf 'Analysis'
'Prediction and recognition' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000057
ClustalX 2.1
'ClustalX 2.1' SubClassOf 'has version' value 'ClustalX version 2.1'
'ClustalX 2.1' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/bioinformatics/btm404"
'ClustalX 2.1' SubClassOf 'has interface' only 'graphical user interface'
'ClustalX 2.1' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Conway Institute UCD Dublin'))
http://edamontology.org/operation_2422
Data retrieval
'Data retrieval' SubClassOf 'has input' some 'Identifier'
http://www.ebi.ac.uk/swo/SWO_0000056
ClustalW 2.1
'ClustalW 2.1' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/bioinformatics/btm404"
'ClustalW 2.1' SubClassOf 'has version' value 'ClustalW version 2.1'
'ClustalW 2.1' SubClassOf 'has interface' only 'command-line interface'
'ClustalW 2.1' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Conway Institute UCD Dublin'))
http://edamontology.org/operation_2429
Mapping
'Mapping' SubClassOf 'Analysis'
'Mapping' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000059
EBI Clustal Omega Web Tool
'EBI Clustal Omega Web Tool' SubClassOf 'uses software' some 'Clustal Omega 1.1'
'EBI Clustal Omega Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'European Bioinformatics Institute'))
'EBI Clustal Omega Web Tool' SubClassOf 'has interface' some 'web user interface'
http://edamontology.org/operation_2428
Validation
'Validation' SubClassOf 'Analysis'
'Validation' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000058
EBI Clustal W2 Web Tool
'EBI Clustal W2 Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'European Bioinformatics Institute'))
'EBI Clustal W2 Web Tool' SubClassOf 'has interface' some 'web user interface'
'EBI Clustal W2 Web Tool' SubClassOf 'uses software' some 'ClustalW 2.1'
http://edamontology.org/operation_2427
Data handling
'Data handling' SubClassOf 'Obsolete concept (EDAM)'
'Data handling' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2426
Modelling and simulation
'Modelling and simulation' SubClassOf 'has topic' some 'Molecular modelling'
'Modelling and simulation' SubClassOf 'Analysis'
'Modelling and simulation' SubClassOf http://edamontology.org/operation_0004
http://edamontology.org/data_1386
Sequence alignment (nucleic acid pair)
'Sequence alignment (nucleic acid pair)' SubClassOf 'Sequence alignment (pair)'
'Sequence alignment (nucleic acid pair)' SubClassOf 'Sequence alignment (nucleic acid)'
'Sequence alignment (nucleic acid pair)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2421
Database search
'Database search' SubClassOf 'has output' some 'Database search results'
http://www.ebi.ac.uk/swo/SWO_0000051
Clustal
'Clustal' SubClassOf 'is executed in' some 'multiple sequence alignment'
http://edamontology.org/data_1389
Multiple nucleotide sequence alignment
'Multiple nucleotide sequence alignment' SubClassOf 'Obsolete concept (EDAM)'
'Multiple nucleotide sequence alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2420
Operation (typed)
'Operation (typed)' SubClassOf 'information processing'
'Operation (typed)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1388
Hybrid sequence alignment (pair)
'Hybrid sequence alignment (pair)' SubClassOf 'Obsolete concept (EDAM)'
'Hybrid sequence alignment (pair)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1387
Sequence alignment (protein pair)
'Sequence alignment (protein pair)' SubClassOf 'Sequence alignment (protein)'
'Sequence alignment (protein pair)' SubClassOf 'Sequence alignment (pair)'
'Sequence alignment (protein pair)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2331
HTML
'HTML' SubClassOf 'data format specification'
'HTML' SubClassOf 'is format of' some 'Report'
'HTML' SubClassOf http://edamontology.org/format_1915
http://edamontology.org/format_2330
Textual format
'Textual format' SubClassOf http://edamontology.org/format_1915
http://edamontology.org/format_2333
Binary format
binary format
'binary format' SubClassOf http://edamontology.org/format_1915
http://edamontology.org/format_2332
XML
'XML' SubClassOf http://edamontology.org/format_1915
http://edamontology.org/data_1382
Sequence alignment (multiple)
'Sequence alignment (multiple)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment (multiple)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1380
Protein post-translational modification signature
'Protein post-translational modification signature' SubClassOf 'Obsolete concept (EDAM)'
'Protein post-translational modification signature' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2419
Primer and probe design
'Primer and probe design' SubClassOf 'has topic' some 'Sequence design'
http://edamontology.org/format_2334
URI format
'URI format' SubClassOf 'Obsolete concept (EDAM)'
'URI format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2436
Functional enrichment
'Functional enrichment' SubClassOf 'Gene expression data analysis'
'Functional enrichment' SubClassOf 'has topic' some 'Function analysis'
'Functional enrichment' SubClassOf 'Gene set testing'
http://www.ebi.ac.uk/swo/SWO_0000066
EBI TCoffee Web Tool
'EBI TCoffee Web Tool' SubClassOf 'has interface' some 'web service'
'EBI TCoffee Web Tool' SubClassOf 'has interface' some 'web user interface'
'EBI TCoffee Web Tool' SubClassOf 'uses software' some 'CRG TCoffee 9.02.r1228'
'EBI TCoffee Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'European Bioinformatics Institute'))
http://edamontology.org/operation_2435
Gene expression profile processing
'Gene expression profile processing' SubClassOf 'Obsolete concept (EDAM)'
'Gene expression profile processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000065
CRG TCoffee
'CRG TCoffee' SubClassOf 'has documentation' value "http://dx.doi.org/10.1006/jmbi.2000.4042"
http://edamontology.org/operation_2434
Data retrieval (codon usage table)
'Data retrieval (codon usage table)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (codon usage table)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000068
CRG TCoffee Web Tool
'CRG TCoffee Web Tool' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/nar/gkr245"
'CRG TCoffee Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Centre for Genomic Regulation (CRG) of Barcelona'))
'CRG TCoffee Web Tool' SubClassOf 'has interface' some 'web user interface'
'CRG TCoffee Web Tool' SubClassOf 'uses software' some 'CRG TCoffee 9.02.r1228'
http://www.ebi.ac.uk/swo/SWO_0000067
CRG RCoffee Web Tool
'CRG RCoffee Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Centre for Genomic Regulation (CRG) of Barcelona'))
'CRG RCoffee Web Tool' SubClassOf 'has interface' some 'web user interface'
'CRG RCoffee Web Tool' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/nar/gkn278"
'CRG RCoffee Web Tool' SubClassOf 'uses software' some 'CRG TCoffee 9.02.r1228'
http://edamontology.org/operation_2439
RNA secondary structure analysis
'RNA secondary structure analysis' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
http://www.ebi.ac.uk/swo/SWO_0000069
CRG MCoffee Web Tool
'CRG MCoffee Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Centre for Genomic Regulation (CRG) of Barcelona'))
'CRG MCoffee Web Tool' SubClassOf 'uses software' some 'CRG TCoffee 9.02.r1228'
'CRG MCoffee Web Tool' SubClassOf 'has interface' some 'web user interface'
'CRG MCoffee Web Tool' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/nar/gkm333"
http://edamontology.org/operation_2438
Pathway or network processing
'Pathway or network processing' SubClassOf 'Operation (typed)'
'Pathway or network processing' SubClassOf 'has topic' some 'Molecular interactions, pathways and networks'
'Pathway or network processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2437
Gene regulatory network prediction
'Gene regulatory network prediction' SubClassOf 'has output' some 'Pathway or network report'
'Gene regulatory network prediction' SubClassOf 'has topic' some 'Gene regulatory networks'
http://edamontology.org/data_1396
Aligned sequence order
'Aligned sequence order' SubClassOf 'Obsolete concept (EDAM)'
'Aligned sequence order' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1395
Score end gaps control
'Score end gaps control' SubClassOf 'Obsolete concept (EDAM)'
'Score end gaps control' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000060
MUSCLE
'MUSCLE' SubClassOf 'is executed in' some 'multiple sequence alignment'
http://edamontology.org/data_1394
Alignment score or penalty
'Alignment score or penalty' SubClassOf 'Parameter'
'Alignment score or penalty' SubClassOf 'Score'
http://edamontology.org/operation_2432
Microarray data processing
'Microarray data processing' SubClassOf 'Obsolete concept (EDAM)'
'Microarray data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000062
MUSCLE 3.8.31
'MUSCLE 3.8.31' SubClassOf 'has download location' value "http://www.drive5.com/muscle/downloads.htm"
'MUSCLE 3.8.31' SubClassOf 'has interface' some 'command-line interface'
'MUSCLE 3.8.31' SubClassOf 'has documentation' value "http://www.drive5.com/muscle/muscle_userguide3.8.html"
'MUSCLE 3.8.31' SubClassOf 'has version' value 'MUSCLE version 3.8.31'
'MUSCLE 3.8.31' SubClassOf 'has documentation' value "http://dx.doi.org/10.1093/nar/gkh340"
'MUSCLE 3.8.31' SubClassOf 'software with command line interface'
http://www.ebi.ac.uk/swo/SWO_0000061
EBI Muscle Web Tool
'EBI Muscle Web Tool' SubClassOf 'uses software' some 'MUSCLE 3.8.31'
'EBI Muscle Web Tool' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'European Bioinformatics Institute'))
'EBI Muscle Web Tool' SubClassOf 'has interface' some 'web user interface'
http://edamontology.org/operation_2430
Design
'Design' SubClassOf 'Analysis'
'Design' SubClassOf http://edamontology.org/operation_0004
http://www.ebi.ac.uk/swo/SWO_0000064
TCoffee
'TCoffee' SubClassOf 'is executed in' some 'multiple sequence alignment'
http://www.ebi.ac.uk/swo/SWO_0000063
Drive5 MUSCLE
'Drive5 MUSCLE' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Drive5'))
http://edamontology.org/format_2322
BioCyc enzyme report format
'BioCyc enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'BioCyc enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1390
Multiple protein sequence alignment
'Multiple protein sequence alignment' SubClassOf 'Obsolete concept (EDAM)'
'Multiple protein sequence alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2328
PseudoCAP gene report format
'PseudoCAP gene report format' SubClassOf 'Obsolete concept (EDAM)'
'PseudoCAP gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2329
GeneCards gene report format
'GeneCards gene report format' SubClassOf 'Obsolete concept (EDAM)'
'GeneCards gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_2323
ENZYME enzyme report format
'ENZYME enzyme report format' SubClassOf 'Obsolete concept (EDAM)'
'ENZYME enzyme report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2489
Protein subcellular localization prediction
'Protein subcellular localization prediction' SubClassOf 'has topic' some 'Protein targeting and localization'
'Protein subcellular localization prediction' SubClassOf 'Prediction and recognition (protein)'
http://edamontology.org/data_3107
Sequence feature name
'Sequence feature name' SubClassOf 'Name'
'Sequence feature name' SubClassOf 'Sequence feature identifier'
'Sequence feature name' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3108
Experimental measurement
'Experimental measurement' SubClassOf 'data'
'Experimental measurement' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/operation_2483
Structure comparison
'Structure comparison' SubClassOf 'has topic' some 'Structure comparison'
http://edamontology.org/operation_2482
Secondary structure processing
'Secondary structure processing' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3105
Geotemporal metadata
'Geotemporal metadata' SubClassOf 'Obsolete concept (EDAM)'
'Geotemporal metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2481
Nucleic acid structure analysis
'Nucleic acid structure analysis' SubClassOf 'has input' some 'Nucleic acid structure'
'Nucleic acid structure analysis' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
http://edamontology.org/operation_2480
Structure analysis
'Structure analysis' SubClassOf 'Operation (typed)'
'Structure analysis' SubClassOf 'has topic' some 'Structure analysis'
'Structure analysis' SubClassOf 'Analysis'
http://edamontology.org/operation_2487
Protein structure comparison
'Protein structure comparison' SubClassOf 'has input' some 'Protein structure'
http://edamontology.org/operation_2486
Topology diagram drawing
'Topology diagram drawing' SubClassOf 'has output' some 'Protein structure image'
'Topology diagram drawing' SubClassOf 'Protein secondary structure rendering'
'Topology diagram drawing' SubClassOf 'Structure visualisation'
http://edamontology.org/data_3101
Protein domain classification node
'Protein domain classification node' SubClassOf 'Obsolete concept (EDAM)'
'Protein domain classification node' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2485
Helical wheel drawing
'Helical wheel drawing' SubClassOf 'has output' some 'Helical wheel'
'Helical wheel drawing' SubClassOf 'Protein secondary structure rendering'
'Helical wheel drawing' SubClassOf 'Structure visualisation'
http://www.ebi.ac.uk/swo/license/SWO_1000061
free to use license
'free to use license' SubClassOf 'has clause' some 'Usage unrestricted'
http://edamontology.org/operation_2499
Splicing model analysis
'Splicing model analysis' SubClassOf 'has topic' some 'Gene structure'
http://www.ebi.ac.uk/swo/SWO_0000001
software
'software' SubClassOf 'is executed in' some 'information processing'
http://edamontology.org/data_3118
Protein features report (topological domains)
'Protein features report (topological domains)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (topological domains)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000004
Microsoft Excel 2007
'Microsoft Excel 2007' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'tab delimited file format'))
'Microsoft Excel 2007' SubClassOf 'directly followed by' some 'Microsoft Excel for Windows 2010'
'Microsoft Excel 2007' SubClassOf 'has version' value 'Microsoft 2007 version'
'Microsoft Excel 2007' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'XML spreadsheet'))
'Microsoft Excel 2007' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'tab delimited file format'))
'Microsoft Excel 2007' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'XLS spreadsheet'))
'Microsoft Excel 2007' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'XLS spreadsheet'))
'Microsoft Excel 2007' SubClassOf 'has release date' value "2007-01-30T0:00:00"
'Microsoft Excel 2007' SubClassOf 'has website homepage' value "http://office.microsoft.com/"
http://edamontology.org/data_3119
Sequence features (compositionally-biased regions)
'Sequence features (compositionally-biased regions)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence features (compositionally-biased regions)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000003
information processing
'data format specification' DisjointWith 'information processing'
'information processing' DisjointWith http://www.w3.org/2002/07/owl#DeprecatedClass
'data' DisjointWith 'information processing'
'Topic' DisjointWith 'information processing'
http://www.ebi.ac.uk/swo/SWO_0000006
Protege 4
'Protege 4' SubClassOf 'has specified data input' some
('Ontology' and ('has format specification' some 'RDF-XML'))
'Protege 4' SubClassOf 'has specified data output' some
('Ontology' and ('has format specification' some 'RDF-XML'))
'Protege 4' SubClassOf 'has specified data input' some
('Ontology' and ('has format specification' some 'OWL2-XML'))
'Protege 4' SubClassOf 'has website homepage' value "http://protege.stanford.edu/"
'Protege 4' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Stanford University'))
'Protege 4' SubClassOf 'has specified data input' some
('Ontology' and ('has format specification' some 'OWL-XML'))
'Protege 4' SubClassOf 'software'
'Protege 4' SubClassOf 'is executed in' some 'ontology engineering'
'Protege 4' SubClassOf 'has license' some 'MPL v1.1'
'Protege 4' SubClassOf 'has interface' some 'graphical user interface'
'Protege 4' SubClassOf 'has specified data output' some
('Ontology' and ('has format specification' some 'OWL-XML'))
'Protege 4' SubClassOf 'has specified data output' some
('Ontology' and ('has format specification' some 'OWL2-XML'))
'Protege 4' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Stanford University'))
'Protege 4' SubClassOf 'ontology engineering software'
http://www.ebi.ac.uk/swo/SWO_0000005
MATLAB
'MATLAB' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'MathWorks'))
'MATLAB' SubClassOf 'output of' some
('software development process' and ('has participant' value 'MathWorks'))
'MATLAB' SubClassOf 'has website homepage' value "http://www.mathworks.com/products/matlab/"
'MATLAB' SubClassOf 'is executed in' some 'matrix manipulation'
'MATLAB' SubClassOf 'has license' some 'Proprietary commercial software license'
'MATLAB' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'Matlab .m file'))
'MATLAB' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'Matlab .m file'))
http://edamontology.org/operation_2493
Codon usage data processing
'Codon usage data processing' SubClassOf 'Obsolete concept (EDAM)'
'Codon usage data processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3116
Microarray protocol annotation
'Microarray protocol annotation' SubClassOf 'Obsolete concept (EDAM)'
'Microarray protocol annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2492
Protein interaction prediction
'Protein interaction prediction' SubClassOf 'has output' some 'Protein interaction report'
'Protein interaction prediction' SubClassOf 'has topic' some 'Protein interactions'
http://edamontology.org/operation_2491
Hydrogen bond calculation (inter-residue)
'Hydrogen bond calculation (inter-residue)' SubClassOf 'Hydrogen bond calculation'
'Hydrogen bond calculation (inter-residue)' SubClassOf 'Residue contact calculation (residue-residue)'
'Hydrogen bond calculation (inter-residue)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2498
Sequencing-based expression profile data analysis
'Sequencing-based expression profile data analysis' SubClassOf 'Obsolete concept (EDAM)'
'Sequencing-based expression profile data analysis' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3111
Processed microarray data
'Processed microarray data' SubClassOf 'has topic' some 'Gene expression'
http://edamontology.org/operation_2497
Pathway or network analysis
'Pathway or network analysis' SubClassOf 'has input' some 'Pathway or network'
'Pathway or network analysis' SubClassOf 'Pathway or network processing'
'Pathway or network analysis' SubClassOf 'Analysis'
http://edamontology.org/operation_2496
Gene regulatory network processing
'Gene regulatory network processing' SubClassOf 'Obsolete concept (EDAM)'
'Gene regulatory network processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2495
Gene expression data analysis
'Gene expression data analysis' SubClassOf 'Operation (typed)'
'Gene expression data analysis' SubClassOf 'has topic' some 'Gene expression'
'Gene expression data analysis' SubClassOf 'Analysis'
http://www.ebi.ac.uk/swo/license/SWO_1000055
MPL v2.0
Mozilla Public License Version 2.0
'Mozilla Public License Version 2.0' SubClassOf 'is compatible license of' some 'GNU GPL v2'
'Mozilla Public License Version 2.0' SubClassOf 'is compatible license of' some 'GNU GPL v3'
'Mozilla Public License Version 2.0' SubClassOf 'GNU Copyleft Software License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000057
Artistic License v2.0
'Artistic License v2.0' SubClassOf 'has clause' some 'Distribution with notices'
'Artistic License v2.0' SubClassOf 'is compatible license of' some 'GNU GPL v3'
'Artistic License v2.0' SubClassOf 'is compatible license of' some 'GNU GPL v2'
'Artistic License v2.0' SubClassOf 'has clause' some 'Source code available'
'Artistic License v2.0' SubClassOf 'GNU Copyleft Software License Type'
http://edamontology.org/operation_2490
Residue contact calculation (residue-residue)
'Residue contact calculation (residue-residue)' SubClassOf 'Residue contact calculation'
'Residue contact calculation (residue-residue)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000008
Racket
'Racket' SubClassOf 'has license' some 'GNU GPL'
'Racket' SubClassOf 'output of' some
('software development process' and ('has participant' value 'PLT Scheme Inc'))
http://www.ebi.ac.uk/swo/SWO_0000007
OmniOutliner
'OmniOutliner' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'OmniOutline format'))
'OmniOutliner' SubClassOf 'has license' some 'Proprietary commercial software license'
'OmniOutliner' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Omni'))
'OmniOutliner' SubClassOf 'has website homepage' value "http://www.omnigroup.com/products/omnioutliner/"
'OmniOutliner' SubClassOf 'is executed in' some 'document outlining'
'OmniOutliner' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Omni'))
http://www.ebi.ac.uk/swo/SWO_0000009
Kakadu
'Kakadu' SubClassOf 'software'
'Kakadu' SubClassOf 'has website homepage' value "http://www.kakadusoftware.com"
'Kakadu' SubClassOf 'is executed in' some 'image compression'
'Kakadu' SubClassOf 'has interface' some 'graphical user interface'
'Kakadu' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'JPEG 2000'))
'Kakadu' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'image format'))
'Kakadu' SubClassOf 'software with image input'
http://www.ebi.ac.uk/swo/license/SWO_1000050
CC BY 2.0
'CC BY 2.0' SubClassOf 'has clause' some 'derivative software allowed'
'CC BY 2.0' SubClassOf 'has clause' some 'Distribution unrestricted'
'CC BY 2.0' SubClassOf 'has clause' some 'Source code available'
'CC BY 2.0' SubClassOf 'has clause' some 'Attribution required'
'CC BY 2.0' SubClassOf 'GNU Copyleft Software License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000052
CC BY-SA 2.0
'CC BY-SA 2.0' SubClassOf 'has clause' some 'Source code available'
'CC BY-SA 2.0' SubClassOf 'has clause' some 'Copyleft'
'CC BY-SA 2.0' SubClassOf 'has clause' some 'Distribution unrestricted'
'CC BY-SA 2.0' SubClassOf 'has clause' some 'Attribution required'
'CC BY-SA 2.0' SubClassOf 'GNU Project Free Software License Type'
http://edamontology.org/operation_2469
Data retrieval (protein interaction annotation)
'Data retrieval (protein interaction annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (protein interaction annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000011
IntelliJ IDEA
'IntelliJ IDEA' SubClassOf 'has license' some
('Proprietary commercial software license' or 'Apache license v2')
'IntelliJ IDEA' SubClassOf 'has specified data output' some
('data' and ('has format specification' some '.java file'))
'IntelliJ IDEA' SubClassOf 'is executed in' some 'software development'
'IntelliJ IDEA' SubClassOf 'has website homepage' value "http://www.jetbrains.com/idea/"
'IntelliJ IDEA' SubClassOf 'has interface' some 'graphical user interface'
'IntelliJ IDEA' SubClassOf 'output of' some
('software development process' and ('has participant' value 'JetBrains'))
'IntelliJ IDEA' SubClassOf 'has specified data input' some
('data' and ('has format specification' some '.java file'))
http://edamontology.org/operation_2468
Data retrieval (phylogenetic tree)
'Data retrieval (phylogenetic tree)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (phylogenetic tree)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000010
WordStar
'WordStar' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'WordStar format'))
'WordStar' SubClassOf 'has interface' some 'graphical user interface'
'WordStar' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'MicroPro International'))
'WordStar' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'WordStar format'))
'WordStar' SubClassOf 'is executed in' some 'word processing'
http://edamontology.org/operation_2467
Data retrieval (protein annotation)
'Data retrieval (protein annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (protein annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000013
COPASI
'COPASI' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'SBML'))
'COPASI' SubClassOf 'has website homepage' value "http://www.copasi.org"
'COPASI' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'CopasiML'))
'COPASI' SubClassOf 'is executed in' some 'simulation and analysis of biochemical networks'
http://edamontology.org/operation_2466
Map annotation
'Map annotation' SubClassOf 'Obsolete concept (EDAM)'
'Map annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000012
Java
'Java' SubClassOf 'has website homepage' value "http://www.java.com"
http://edamontology.org/data_3129
Protein features report (repeats)
'Protein features report (repeats)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (repeats)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000015
Microsoft Excel 2002
'Microsoft Excel 2002' SubClassOf 'has version' value 'Microsoft 2002 version'
'Microsoft Excel 2002' SubClassOf 'software before Microsoft 2007'
http://www.ebi.ac.uk/swo/SWO_0000014
Microsoft Excel 2003
'Microsoft Excel 2003' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'XML spreadsheet'))
'Microsoft Excel 2003' SubClassOf 'has version' value 'Microsoft 2003 version'
'Microsoft Excel 2003' SubClassOf 'software before Microsoft 2007'
http://www.ebi.ac.uk/swo/SWO_0000017
MATLAB 6
'MATLAB 6' SubClassOf 'has version' value 'Matlab R12'
http://edamontology.org/topic_1770
Structure comparison
'Structure comparison' SubClassOf 'Structure analysis'
'Structure comparison' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000016
MATLAB 7
'MATLAB 7' SubClassOf 'has version' value 'Matlab R14'
http://edamontology.org/data_3125
Nucleic acid features report (binding)
'Nucleic acid features report (binding)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (binding)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2461
Protein residue surface calculation
'Protein residue surface calculation' SubClassOf 'Protein surface and interior calculation'
'Protein residue surface calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3126
Nucleic acid repeats (report)
'Nucleic acid repeats (report)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid repeats (report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2460
Protein atom surface calculation
'Protein atom surface calculation' SubClassOf 'Protein surface and interior calculation'
'Protein atom surface calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3127
Nucleic acid features report (replication and recombination)
'Nucleic acid features report (replication and recombination)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (replication and recombination)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2465
Structure processing
'Structure processing' SubClassOf 'Obsolete concept (EDAM)'
'Structure processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3122
Nucleic acid features (difference and change)
'Nucleic acid features (difference and change)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (difference and change)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2464
Protein-protein interaction prediction
'Protein-protein interaction prediction' SubClassOf 'has output' some 'Protein interaction report'
'Protein-protein interaction prediction' SubClassOf 'has topic' some 'Protein interactions'
'Protein-protein interaction prediction' SubClassOf 'Protein function prediction'
http://edamontology.org/data_3123
Nucleic acid features report (expression signal)
'Nucleic acid features report (expression signal)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (expression signal)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2463
Sequence alignment processing
'Sequence alignment processing' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment processing' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2462
Protein surface calculation
'Protein surface calculation' SubClassOf 'Protein surface and interior calculation'
'Protein surface calculation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000019
STARLIMS
'STARLIMS' SubClassOf 'is executed in' some 'laboratory information management'
http://www.ebi.ac.uk/swo/SWO_0000018
MATLAB 7.12
'MATLAB 7.12' SubClassOf 'has version' value 'R2011a'
http://www.ebi.ac.uk/swo/SWO_0000022
Linux
'Linux' SubClassOf 'has interface' some 'command-line interface'
'Linux' SubClassOf 'is executed in' some 'manage computer operations'
'Linux' SubClassOf 'software'
'Linux' SubClassOf 'software with command line interface'
'Linux' SubClassOf 'operating system'
http://edamontology.org/operation_2479
Protein sequence analysis
'Protein sequence analysis' SubClassOf 'has input' some 'Protein sequence'
http://www.ebi.ac.uk/swo/SWO_0000021
operating system
'operating system' EquivalentTo 'is executed in' some 'manage computer operations'
http://edamontology.org/operation_2478
Nucleic acid sequence analysis
'Nucleic acid sequence analysis' SubClassOf 'has input' some 'Nucleic acid sequence'
'Nucleic acid sequence analysis' SubClassOf 'has topic' some 'Nucleic acids'
http://www.ebi.ac.uk/swo/SWO_0000024
Adobe Illustrator 10
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'Microsoft Word doc'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'JPEG'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'DWG'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'PNG'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'AI'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'DXF'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'JPEG'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'BMP'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'SVG'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'TIFF'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'DXF'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'DWG'))
'Adobe Illustrator 10' SubClassOf 'software'
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'CGM'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'AI'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'SVG'))
'Adobe Illustrator 10' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Adobe Systems'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'pdf'))
'Adobe Illustrator 10' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'BMP'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'pdf'))
'Adobe Illustrator 10' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'GIF'))
'Adobe Illustrator 10' SubClassOf 'has interface' some 'graphical user interface'
'Adobe Illustrator 10' SubClassOf 'software with image input'
http://www.ebi.ac.uk/swo/SWO_0000026
software with image input
'software with image input' EquivalentTo 'has specified data input' some
('data' and ('has format specification' some 'image format'))
http://www.ebi.ac.uk/swo/SWO_0000025
Microsoft Word
'Microsoft Word' SubClassOf 'is executed in' some 'word processing'
'Microsoft Word' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'Microsoft Word doc'))
'Microsoft Word' SubClassOf 'has interface' some 'graphical user interface'
'Microsoft Word' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'Microsoft Word doc'))
'Microsoft Word' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Microsoft'))
'Microsoft Word' SubClassOf 'software'
'Microsoft Word' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Microsoft'))
'Microsoft Word' SubClassOf 'Microsoft developed software'
http://www.ebi.ac.uk/swo/SWO_0000028
ontology engineering software
'ontology engineering software' EquivalentTo 'is executed in' some 'ontology engineering'
http://www.ebi.ac.uk/swo/SWO_0000027
OBO-Edit
'OBO-Edit' SubClassOf 'is executed in' some 'ontology engineering'
'OBO-Edit' SubClassOf 'software'
'OBO-Edit' SubClassOf 'has specified data input' some
('Ontology' and ('has format specification' some 'OBO'))
'OBO-Edit' SubClassOf 'has interface' some 'graphical user interface'
'OBO-Edit' SubClassOf 'has website homepage' value "http://oboedit.org/"
'OBO-Edit' SubClassOf 'has specified data output' some
('Ontology' and ('has format specification' some 'OBO'))
'OBO-Edit' SubClassOf 'ontology engineering software'
http://edamontology.org/operation_2472
Data retrieval (gene annotation)
'Data retrieval (gene annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (gene annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3137
Non-coding RNA
'Non-coding RNA' SubClassOf 'Obsolete concept (EDAM)'
'Non-coding RNA' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2471
Data retrieval (RNA family annotation)
'Data retrieval (RNA family annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (RNA family annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3138
Transcriptional features (report)
'Transcriptional features (report)' SubClassOf 'Obsolete concept (EDAM)'
'Transcriptional features (report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2470
Data retrieval (protein family annotation)
'Data retrieval (protein family annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (protein family annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3139
Nucleic acid features report (STS)
'Nucleic acid features report (STS)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (STS)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3132
Nucleic acid features (d-loop)
'Nucleic acid features (d-loop)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (d-loop)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2476
Molecular dynamics simulation
'Molecular dynamics simulation' SubClassOf 'has output' some 'Structure'
'Molecular dynamics simulation' SubClassOf 'has topic' some 'Structure prediction'
'Molecular dynamics simulation' SubClassOf 'has topic' some 'Molecular dynamics'
http://edamontology.org/data_3133
Nucleic acid features (stem loop)
'Nucleic acid features (stem loop)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (stem loop)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000020
Unix
'Unix' SubClassOf 'software'
'Unix' SubClassOf 'is executed in' some 'manage computer operations'
'Unix' SubClassOf 'has interface' some 'command-line interface'
'Unix' SubClassOf 'operating system'
'Unix' SubClassOf 'software with command line interface'
http://edamontology.org/data_3135
Nucleic acid features report (signal or transit peptide)
'Nucleic acid features report (signal or transit peptide)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (signal or transit peptide)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_2473
Data retrieval (genotype and phenotype annotation)
'Data retrieval (genotype and phenotype annotation)' SubClassOf 'Obsolete concept (EDAM)'
'Data retrieval (genotype and phenotype annotation)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3130
Sequence motif matches (protein)
'Sequence motif matches (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif matches (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3131
Sequence motif matches (nucleic acid)
'Sequence motif matches (nucleic acid)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence motif matches (nucleic acid)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/SWO_0000029
Microsoft developed software
'Microsoft developed software' EquivalentTo 'output of' some
('software development process' and ('has participant' value 'Microsoft'))
http://edamontology.org/data_3147
Mass spectrometry experiment
'Mass spectrometry experiment' SubClassOf 'Obsolete concept (EDAM)'
'Mass spectrometry experiment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3143
SCOP superfamily
'SCOP superfamily' SubClassOf 'Obsolete concept (EDAM)'
'SCOP superfamily' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3144
SCOP family
'SCOP family' SubClassOf 'Obsolete concept (EDAM)'
'SCOP family' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3145
SCOP protein
'SCOP protein' SubClassOf 'Obsolete concept (EDAM)'
'SCOP protein' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3146
SCOP species
'SCOP species' SubClassOf 'Obsolete concept (EDAM)'
'SCOP species' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3140
Nucleic acid features (immunoglobulin gene structure)
'Nucleic acid features (immunoglobulin gene structure)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (immunoglobulin gene structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3141
SCOP class
'SCOP class' SubClassOf 'Obsolete concept (EDAM)'
'SCOP class' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3142
SCOP fold
'SCOP fold' SubClassOf 'Obsolete concept (EDAM)'
'SCOP fold' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_1000008
Open source software license
'Open source software license' EquivalentTo 'has clause' some 'Source code available'
http://www.ebi.ac.uk/swo/license/SWO_1000009
License without restrictions on derivatives
'License without restrictions on derivatives' EquivalentTo 'has clause' some 'No restrictions on derivatives'
http://edamontology.org/topic_3510
Protein sites, features and motifs
'Protein sites, features and motifs' SubClassOf 'Proteins'
http://edamontology.org/data_3165
NGS experiment
'NGS experiment' SubClassOf 'Obsolete concept (EDAM)'
'NGS experiment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_1000044
GNU Copyleft Software License Type
'GNU Copyleft Software License Type' EquivalentTo 'GNU Project Free Software License Type' and ('has clause' some 'Copyleft')
http://www.ebi.ac.uk/swo/license/SWO_1000049
CC0
'CC0' SubClassOf 'has clause' some 'Source code available'
'CC0' SubClassOf 'has clause' some 'No restrictions on derivatives'
'CC0' SubClassOf 'has clause' some 'Usage unrestricted'
'CC0' SubClassOf 'has clause' some 'Number of users unrestricted'
'CC0' SubClassOf 'has clause' some 'Number of installations unrestricted'
'CC0' SubClassOf 'has clause' some 'Time for use unrestricted'
'CC0' SubClassOf 'has clause' some 'Distribution unrestricted'
'CC0' SubClassOf 'GNU Copyleft Software License Type'
'CC0' SubClassOf 'License without restrictions on derivatives'
http://edamontology.org/topic_3514
Protein-ligand interactions
'Protein-ligand interactions' SubClassOf 'Protein interactions'
'Protein-ligand interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3511
Nucleic acid sites, features and motifs
'Nucleic acid sites, features and motifs' SubClassOf 'Nucleic acids'
http://edamontology.org/topic_3517
GWAS study
'GWAS study' SubClassOf 'Laboratory techniques'
'GWAS study' SubClassOf http://edamontology.org/topic_3678
http://edamontology.org/topic_3515
Protein-drug interactions
'Protein-drug interactions' SubClassOf 'Protein-ligand interactions'
'Protein-drug interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_1000043
GNU Project Free Software License Type
'GNU Project Free Software License Type' EquivalentTo 'software license' and ('has clause' some 'Source code available') and ('has clause' some
('Distribution unrestricted' or 'Distribution with notices'))
'GNU Project Free Software License Type' SubClassOf 'software license'
'GNU Project Free Software License Type' SubClassOf 'Open source software license'
http://www.ebi.ac.uk/efo/swo/SWO_0000103
multiscan
'multiscan' SubClassOf 'has specified data output' some 'Graph plot'
'multiscan' SubClassOf 'software'
'multiscan' SubClassOf 'implements' some 'Non-linear functional regression model'
'multiscan' SubClassOf 'is encoded in' some 'R language'
'multiscan' SubClassOf 'has specified data input' some
('Text data set' or 'CSV data set')
'multiscan' SubClassOf 'is executed in' some 'differential expression analysis'
'multiscan' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000104
affy
'affy' SubClassOf 'implements' some
('RMA' and ''MAS5'')
'affy' SubClassOf 'is published by' value 'Bioconductor'
'affy' SubClassOf 'software'
'affy' SubClassOf 'has specified data input' some ('has format specification' some
('CDF binary format' or 'CEL binary format' or 'CDF ASCII format' or 'CEL ASCII format'))
'affy' SubClassOf 'has specified data output' some
('Image' and 'Text data set' and 'Graph plot')
'affy' SubClassOf 'is executed in' some
('background correction' and 'data normalization' and 'differential expression analysis')
'affy' SubClassOf 'is encoded in' some 'R language'
'affy' SubClassOf 'R software'
'affy' SubClassOf 'BioConductor Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000101
ChipSkipper
'ChipSkipper' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'EMBL'))
http://edamontology.org/data_0903
Protein folding report
'Protein folding report' SubClassOf 'Obsolete concept (EDAM)'
'Protein folding report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3521
2D PAGE experiment
'2D PAGE experiment' SubClassOf 'Proteomics experiment'
'2D PAGE experiment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0902
Protein architecture report
'Protein architecture report' SubClassOf 'Obsolete concept (EDAM)'
'Protein architecture report' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000100
ChipReader 3.1
'ChipReader 3.1' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Bio-Rad Laboratories, Inc.'))
http://edamontology.org/data_0901
Protein features report (domains)
'Protein features report (domains)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (domains)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0900
Protein domain classification
'Protein domain classification' SubClassOf 'Obsolete concept (EDAM)'
'Protein domain classification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3525
Protein-nucleic acid interactions
'Protein-nucleic acid interactions' SubClassOf 'Protein interactions'
'Protein-nucleic acid interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3523
RNAi experiment
'RNAi experiment' SubClassOf 'Sequencing'
'RNAi experiment' SubClassOf 'Laboratory techniques'
http://www.ebi.ac.uk/efo/swo/SWO_0000109
Annotation-Driven Clustering
'Annotation-Driven Clustering' SubClassOf 'implements' some 'k-means'
'Annotation-Driven Clustering' SubClassOf 'is encoded in' some 'R language'
'Annotation-Driven Clustering' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
'Annotation-Driven Clustering' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
'Annotation-Driven Clustering' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
'Annotation-Driven Clustering' SubClassOf 'software'
'Annotation-Driven Clustering' SubClassOf 'implements' some ''FDR''
'Annotation-Driven Clustering' SubClassOf 'R software'
http://edamontology.org/topic_3522
Northern blot experiment
'Northern blot experiment' SubClassOf 'Proteomics experiment'
'Northern blot experiment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3529
Environmental information processing pathways
'Environmental information processing pathways' SubClassOf 'Molecular interactions, pathways and networks'
'Environmental information processing pathways' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000107
Feature Extraction Software
'Feature Extraction Software' SubClassOf 'is executed in' some 'feature extraction'
http://edamontology.org/topic_3528
Disease pathways
'Disease pathways' SubClassOf 'Molecular interactions, pathways and networks'
'Disease pathways' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3527
Cellular process pathways
'Cellular process pathways' SubClassOf 'Molecular interactions, pathways and networks'
'Cellular process pathways' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000105
affycomp
'affycomp' SubClassOf 'implements' some
('RMA' and ''MAS5'')
'affycomp' SubClassOf 'software'
'affycomp' SubClassOf 'is encoded in' some 'R language'
'affycomp' SubClassOf 'has specified data output' some
('Text data set' and 'Graph plot')
'affycomp' SubClassOf 'is executed in' some
('dataset comparison' and 'correction')
'affycomp' SubClassOf 'has specified data input' some 'CSV data set'
'affycomp' SubClassOf 'R software'
http://edamontology.org/topic_3526
Protein-protein interactions
'Protein-protein interactions' SubClassOf 'Protein interactions'
'Protein-protein interactions' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/topic_3413
Infectious tropical disease
'Infectious tropical disease' SubClassOf 'Infectious disease'
'Infectious tropical disease' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000004
50-50 MANOVA
'50-50 MANOVA' SubClassOf 'is encoded in' some 'MATLAB language'
'50-50 MANOVA' SubClassOf 'is encoded in' some 'R language'
'50-50 MANOVA' SubClassOf 'implements' some '50-50 MANOVA algorithm'
'50-50 MANOVA' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Matforsk'))
'50-50 MANOVA' SubClassOf 'software'
'50-50 MANOVA' SubClassOf 'R software'
'50-50 MANOVA' SubClassOf 'matlab software'
http://www.ebi.ac.uk/efo/swo/SWO_0000005
ABarray
'ABarray' SubClassOf 'implements' some 'Local-pooled-error'
'ABarray' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
'ABarray' SubClassOf 'has specified data output' some
('CSV data set' and ('has format specification' some 'data format specification'))
'ABarray' SubClassOf 'is executed in' some 'gene expression analysis'
'ABarray' SubClassOf 'software'
'ABarray' SubClassOf 'implements' some ''FDR''
'ABarray' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'data format specification'))
'ABarray' SubClassOf 'is encoded in' some 'R language'
'ABarray' SubClassOf 'implements' some ''t-test''
'ABarray' SubClassOf 'has specified data input' some
('CSV data set' and ('has format specification' some 'data format specification'))
'ABarray' SubClassOf 'implements' some ''ANOVA''
'ABarray' SubClassOf 'R software'
http://edamontology.org/format_1810
ColiCard report format
'ColiCard report format' SubClassOf 'Obsolete concept (EDAM)'
'ColiCard report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000008
Affymetrix Expression Console
'Affymetrix Expression Console' SubClassOf 'has specified data input' some
('Image' and ('has format specification' some 'CEL binary format'))
'Affymetrix Expression Console' SubClassOf 'implements' some 'RMA'
'Affymetrix Expression Console' SubClassOf 'implements' some 'PLIER (Probe Logarithmic Error Intensity Estimate) method'
'Affymetrix Expression Console' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Affymetrix'))
'Affymetrix Expression Console' SubClassOf 'implements' some ''MAS5''
'Affymetrix Expression Console' SubClassOf 'output of' some
('software development process' and ('has participant' value 'Affymetrix'))
'Affymetrix Expression Console' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'CHP binary format'))
http://www.ebi.ac.uk/efo/swo/SWO_0000009
AIDA
'AIDA' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Raytest'))
http://www.ebi.ac.uk/efo/swo/SWO_0000007
Algorithms for Calculating Microarray Enrichment
'Algorithms for Calculating Microarray Enrichment' SubClassOf 'has specified data output' some 'Graph plot'
'Algorithms for Calculating Microarray Enrichment' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'Algorithms for Calculating Microarray Enrichment' SubClassOf 'implements' some
('Algorithms for Calculating Microarray Enrichment' and 'Chi-square')
'Algorithms for Calculating Microarray Enrichment' SubClassOf 'is encoded in' some 'R language'
'Algorithms for Calculating Microarray Enrichment' SubClassOf 'software'
'Algorithms for Calculating Microarray Enrichment' SubClassOf 'R software'
http://edamontology.org/data_3085
Protein sequence composition
'Protein sequence composition' SubClassOf 'Obsolete concept (EDAM)'
'Protein sequence composition' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_3086
Nucleic acid sequence composition (report)
'Nucleic acid sequence composition (report)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid sequence composition (report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_1000004
GNU GPL
'GNU GPL' SubClassOf 'has clause' some 'Source code available'
'GNU GPL' SubClassOf 'has clause' some 'Copyleft'
'GNU GPL' SubClassOf 'has clause' some 'Distribution unrestricted'
'GNU GPL' SubClassOf 'software license'
'GNU GPL' SubClassOf 'has clause' some 'Number of users unrestricted'
'GNU GPL' SubClassOf 'has clause' some 'Usage unrestricted'
'GNU GPL' SubClassOf 'has clause' some 'Time for use unrestricted'
'GNU GPL' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Free Software Foundation'))
'GNU GPL' SubClassOf 'has clause' some 'Number of installations unrestricted'
'GNU GPL' SubClassOf 'GNU Project Free Software License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000005
Apache license v2
'Apache license v2' SubClassOf 'is compatible license of' some 'GNU GPL v3'
'Apache license v2' SubClassOf 'software license'
'Apache license v2' SubClassOf 'has clause' some 'Distribution with notices'
'Apache license v2' SubClassOf 'has clause' some 'No restrictions on derivatives'
'Apache license v2' SubClassOf 'has clause' some 'Source code available'
'Apache license v2' SubClassOf 'GNU Copyleft Software License Type'
'Apache license v2' SubClassOf 'License without restrictions on derivatives'
http://www.ebi.ac.uk/swo/license/SWO_1000006
Academic Free License version 3
'Academic Free License version 3' SubClassOf 'has clause' some 'derivative software allowed'
'Academic Free License version 3' SubClassOf 'has clause' some 'Source code available'
'Academic Free License version 3' SubClassOf 'has clause' some 'Distribution unrestricted'
'Academic Free License version 3' SubClassOf 'has website homepage' value "http://www.opensource.org/licenses/afl-3.0.php"
'Academic Free License version 3' SubClassOf 'software license'
'Academic Free License version 3' SubClassOf 'GNU Project Free Software License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000007
FreeBSD
'FreeBSD' SubClassOf 'is compatible license of' some 'GNU GPL v3'
'FreeBSD' SubClassOf 'is compatible license of' some 'GNU GPL v2'
'FreeBSD' SubClassOf 'has clause' some 'Source code available'
'FreeBSD' SubClassOf 'has clause' some 'derivative software allowed'
'FreeBSD' SubClassOf 'has clause' some 'Distribution with notices'
'FreeBSD' SubClassOf 'software license'
'FreeBSD' SubClassOf 'GNU Copyleft Software License Type'
http://www.ebi.ac.uk/efo/swo/SWO_0000026
Affymetrix Software
'Affymetrix Software' EquivalentTo 'software' and ('is published by' value 'Affymetrix')
http://www.ebi.ac.uk/efo/swo/SWO_0000027
Agi4x44PreProcess
'Agi4x44PreProcess' SubClassOf 'software'
'Agi4x44PreProcess' SubClassOf 'implements' some 'Loess algorithm'
'Agi4x44PreProcess' SubClassOf 'has specified data input' some
('Heatmap' and ('has format specification' some 'image format'))
'Agi4x44PreProcess' SubClassOf 'is executed in' some 'differential expression analysis'
'Agi4x44PreProcess' SubClassOf 'is executed in' some 'data normalization'
'Agi4x44PreProcess' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'cls'))
'Agi4x44PreProcess' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'gct'))
'Agi4x44PreProcess' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'data format specification'))
'Agi4x44PreProcess' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
'Agi4x44PreProcess' SubClassOf 'is executed in' some 'correction'
'Agi4x44PreProcess' SubClassOf 'is encoded in' some 'R language'
'Agi4x44PreProcess' SubClassOf 'has specified data output' some
('HTML report' and ('has format specification' some 'HTML'))
'Agi4x44PreProcess' SubClassOf 'software with image input'
'Agi4x44PreProcess' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000025
Affymetrix GeneChip Operating Software
'Affymetrix GeneChip Operating Software' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Affymetrix'))
http://www.ebi.ac.uk/efo/swo/SWO_0000022
'AffyExpress'
''AffyExpress'' SubClassOf 'is executed in' some 'correction'
''AffyExpress'' SubClassOf 'implements' some ''ANOVA''
''AffyExpress'' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
''AffyExpress'' SubClassOf 'is executed in' some 'differential expression analysis'
''AffyExpress'' SubClassOf 'is executed in' some 'data normalization'
''AffyExpress'' SubClassOf 'has specified data output' some
('HTML report' and ('has format specification' some 'HTML'))
''AffyExpress'' SubClassOf 'is encoded in' some 'R language'
''AffyExpress'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'data format specification'))
''AffyExpress'' SubClassOf 'has specified data input' some
('Image' and ('has format specification' some 'CEL binary format'))
''AffyExpress'' SubClassOf 'software'
''AffyExpress'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000021
'AffyCompatible'
''AffyCompatible'' SubClassOf 'has specified data output' some
('Gene expression dataset' and ('has format specification' some 'MAGE-TAB'))
''AffyCompatible'' SubClassOf 'has specified data input' some
('CSV data set' and ('has format specification' some 'data format specification'))
''AffyCompatible'' SubClassOf 'software'
''AffyCompatible'' SubClassOf 'is encoded in' some 'R language'
''AffyCompatible'' SubClassOf 'is executed in' some 'parse'
''AffyCompatible'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000037
Applied Biosystems 1700 Expression Array System Software
'Applied Biosystems 1700 Expression Array System Software' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Applied Biosystems'))
http://edamontology.org/data_0832
HGNC vocabulary
'HGNC vocabulary' SubClassOf 'Obsolete concept (EDAM)'
'HGNC vocabulary' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0831
MeSH vocabulary
'MeSH vocabulary' SubClassOf 'Obsolete concept (EDAM)'
'MeSH vocabulary' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000035
'AnnotationDbi'
''AnnotationDbi'' SubClassOf 'software'
''AnnotationDbi'' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
''AnnotationDbi'' SubClassOf 'is encoded in' some 'R language'
''AnnotationDbi'' SubClassOf 'has specified data output' some
('Bitmap object' and ('has format specification' some 'data format specification'))
''AnnotationDbi'' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'sqlite'))
''AnnotationDbi'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000034
Agilent Technologies Software
'Agilent Technologies Software' EquivalentTo 'output of' some
('software publishing process' and ('has participant' value 'Agilent Technologies'))
http://edamontology.org/data_0835
UMLS vocabulary
'UMLS vocabulary' SubClassOf 'Obsolete concept (EDAM)'
'UMLS vocabulary' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000032
Agilent Scan Control
'Agilent Scan Control' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Agilent Technologies'))
'Agilent Scan Control' SubClassOf 'software'
'Agilent Scan Control' SubClassOf 'Agilent Technologies Software'
http://www.ebi.ac.uk/efo/swo/SWO_0000039
ArrayGauge
'ArrayGauge' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Fujifilm'))
http://www.ebi.ac.uk/efo/swo/SWO_0000048
BAC
'BAC' SubClassOf 'implements' some 'Bayesian Model'
'BAC' SubClassOf 'has specified data output' some ('has format specification' some 'BED format')
'BAC' SubClassOf 'software'
'BAC' SubClassOf 'is encoded in' some 'R language'
'BAC' SubClassOf 'is published by' value 'Bioconductor'
'BAC' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
'BAC' SubClassOf 'BioConductor Software'
'BAC' SubClassOf 'R software'
http://edamontology.org/data_0843
Database entry
'Database entry' SubClassOf 'Obsolete concept (EDAM)'
'Database entry' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0842
Identifier
'Identifier' DisjointWith 'Report'
'Identifier' SubClassOf 'data'
'Identifier' DisjointWith 'Parameter'
'Identifier' SubClassOf 'is identifier of' some 'data'
'Identifier' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/efo/swo/SWO_0000046
AtlasImage
'AtlasImage' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Clontech Laboratories, Inc'))
http://www.ebi.ac.uk/efo/swo/SWO_0000042
ArrayVision
'ArrayVision' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'GE Healthcare Life Sciences'))
http://www.ebi.ac.uk/efo/swo/SWO_0000040
ArrayNorm
'ArrayNorm' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Institute for Genomics and Bioinformatics Graz University of Technology'))
http://www.ebi.ac.uk/efo/swo/SWO_0000041
'ArrayTools'
''ArrayTools'' SubClassOf 'has specified data output' some
('HTML report' and ('has format specification' some 'HTML'))
''ArrayTools'' SubClassOf 'has specified data input' some
('Gene list' and ('has format specification' some 'R data frame'))
''ArrayTools'' SubClassOf 'implements' some 'RMA'
''ArrayTools'' SubClassOf 'is encoded in' some 'R language'
''ArrayTools'' SubClassOf 'software'
''ArrayTools'' SubClassOf 'is executed in' some 'differential expression analysis'
''ArrayTools'' SubClassOf 'R software'
http://edamontology.org/operation_1914
Structure retrieval (water)
'Structure retrieval (water)' SubClassOf 'Obsolete concept (EDAM)'
'Structure retrieval (water)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/operation_1913
Residue validation
'Residue validation' SubClassOf 'Protein model validation'
'Residue validation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0855
Sequence metadata
'Sequence metadata' SubClassOf 'Obsolete concept (EDAM)'
'Sequence metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1808
GeneIlluminator gene report format
'GeneIlluminator gene report format' SubClassOf 'Obsolete concept (EDAM)'
'GeneIlluminator gene report format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000059
'BSgenome'
''BSgenome'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'FASTA format'))
''BSgenome'' SubClassOf 'software'
''BSgenome'' SubClassOf 'is encoded in' some 'R language'
''BSgenome'' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'dcf'))
''BSgenome'' SubClassOf 'R software'
http://edamontology.org/data_0854
Sequence length specification
'Sequence length specification' SubClassOf 'Obsolete concept (EDAM)'
'Sequence length specification' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000057
BPMAP
'BPMAP' SubClassOf 'is published by' value 'Affymetrix'
http://edamontology.org/data_0852
Sequence mask type
'Sequence mask type' SubClassOf 'Obsolete concept (EDAM)'
'Sequence mask type' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/format_1809
BacMap gene card format
'BacMap gene card format' SubClassOf 'Obsolete concept (EDAM)'
'BacMap gene card format' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000058
BRB-ArrayTools
'BRB-ArrayTools' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Biometric Research Branch'))
http://edamontology.org/data_0859
Sequence signature model
'Sequence signature model' SubClassOf 'Obsolete concept (EDAM)'
'Sequence signature model' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000053
'BGmix'
''BGmix'' SubClassOf 'software'
''BGmix'' SubClassOf 'is encoded in' some 'R language'
''BGmix'' SubClassOf 'implements' some 'Markov Chain Monte Carlo'
''BGmix'' SubClassOf 'implements' some 'Bayesian Model'
''BGmix'' SubClassOf 'is executed in' some 'differential expression analysis'
''BGmix'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000054
BLAST
'BLAST' SubClassOf 'has specified data input' some
('biological sequence data' and ('has format specification' some 'GenBank format'))
'BLAST' SubClassOf 'is executed in' some 'pairwise sequence alignment'
'BLAST' SubClassOf 'has specified data input' some
('biological sequence data' and ('has format specification' some 'FASTA format'))
'BLAST' SubClassOf 'output of' some
('software development process' and ('has participant' value 'NIH'))
'BLAST' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'NIH'))
'BLAST' SubClassOf 'is executed in' some 'multiple sequence alignment'
http://www.ebi.ac.uk/efo/swo/SWO_0000050
'BCRANK'
''BCRANK'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'FASTA format'))
''BCRANK'' SubClassOf 'software'
''BCRANK'' SubClassOf 'is encoded in' some 'R language'
''BCRANK'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''BCRANK'' SubClassOf 'implements' some ''BCRANK''
''BCRANK'' SubClassOf 'R software'
http://edamontology.org/data_0851
Sequence mask character
'Sequence mask character' SubClassOf 'Obsolete concept (EDAM)'
'Sequence mask character' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0850
Sequence set
'Sequence set' SubClassOf 'data'
'Sequence set' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_0866
Sequence alignment metadata
'Sequence alignment metadata' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment metadata' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0864
Sequence alignment parameter
'Sequence alignment parameter' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment parameter' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000068
'BioMVCClass'
''BioMVCClass'' SubClassOf 'is encoded in' some 'R language'
''BioMVCClass'' SubClassOf 'software'
''BioMVCClass'' SubClassOf 'R software'
http://edamontology.org/data_0863
Sequence alignment
'Sequence alignment' SubClassOf 'has topic' some 'Sequence comparison'
http://www.ebi.ac.uk/efo/swo/SWO_0000066
'BicARE'
''BicARE'' SubClassOf 'is encoded in' some 'R language'
''BicARE'' SubClassOf 'software'
''BicARE'' SubClassOf 'has specified data output' some
('HTML report' and ('has format specification' some 'HTML'))
''BicARE'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000065
Beadstudio
'Beadstudio' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Illumina'))
http://www.ebi.ac.uk/efo/swo/SWO_0000063
BasReader 3.01
'BasReader 3.01' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Raytest'))
http://www.ebi.ac.uk/efo/swo/SWO_0000060
BZScan
'BZScan' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Technological Advances for Genomics and Clinics, France'))
http://edamontology.org/data_0861
Sequence alignment (words)
'Sequence alignment (words)' SubClassOf 'Obsolete concept (EDAM)'
'Sequence alignment (words)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0860
Sequence signature data
'Sequence signature data' SubClassOf 'data'
'Sequence signature data' SubClassOf 'has topic' some 'Sequence sites, features and motifs'
'Sequence signature data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_0877
Protein features report (super-secondary)
'Protein features report (super-secondary)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (super-secondary)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0876
Protein features report (secondary structure)
'Protein features report (secondary structure)' SubClassOf 'Obsolete concept (EDAM)'
'Protein features report (secondary structure)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0875
Protein topology
'Protein topology' SubClassOf 'Obsolete concept (EDAM)'
'Protein topology' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000079
'CALIB'
''CALIB'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'image format'))
''CALIB'' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
''CALIB'' SubClassOf 'is executed in' some 'differential expression analysis'
''CALIB'' SubClassOf 'is encoded in' some 'R language'
''CALIB'' SubClassOf 'software'
''CALIB'' SubClassOf 'is executed in' some 'data normalization'
''CALIB'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000077
'BufferedMatrix'
''BufferedMatrix'' SubClassOf 'has specified data output' some
('Text data set' and ('has format specification' some 'Textual format'))
''BufferedMatrix'' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
''BufferedMatrix'' SubClassOf 'is encoded in' some 'R language'
''BufferedMatrix'' SubClassOf 'has specified data input' some
('Text data set' and ('has format specification' some 'Textual format'))
''BufferedMatrix'' SubClassOf 'software'
''BufferedMatrix'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'pdf'))
''BufferedMatrix'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000078
'BufferedMatrixMethods'
''BufferedMatrixMethods'' SubClassOf 'has specified data input' some
('Gene expression data' and ('has format specification' some 'CEL binary format'))
''BufferedMatrixMethods'' SubClassOf 'software'
''BufferedMatrixMethods'' SubClassOf 'is encoded in' some 'R language'
''BufferedMatrixMethods'' SubClassOf 'has specified data output' some
('Gene expression data' and ('has format specification' some 'CEL binary format'))
''BufferedMatrixMethods'' SubClassOf 'R software'
http://edamontology.org/data_0879
Secondary structure alignment metadata (protein)
'Secondary structure alignment metadata (protein)' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure alignment metadata (protein)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000075
'Biostrings'
''Biostrings'' SubClassOf 'implements' some ''Needleman-Wunsch''
''Biostrings'' SubClassOf 'is encoded in' some 'R language'
''Biostrings'' SubClassOf 'software'
''Biostrings'' SubClassOf 'implements' some ''Smith-Waterman''
''Biostrings'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000076
BlueFuse
'BlueFuse' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Cambridge Bluegnome'))
http://www.ebi.ac.uk/efo/swo/SWO_0000071
'BiocCaseStudies'
''BiocCaseStudies'' SubClassOf 'software'
''BiocCaseStudies'' SubClassOf 'is encoded in' some 'R language'
''BiocCaseStudies'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000072
BioConductor Software
'BioConductor Software' SubClassOf 'is executed in' some 'biological data processing'
'BioConductor Software' EquivalentTo 'software' and ('is published by' value 'Bioconductor')
http://edamontology.org/data_0872
Phylogenetic tree
'Phylogenetic tree' SubClassOf 'has topic' some 'Phylogeny'
'Phylogenetic tree' SubClassOf 'data'
'Phylogenetic tree' SubClassOf 'Phylogenetic data'
http://www.ebi.ac.uk/efo/swo/SWO_0000070
'Biobase'
''Biobase'' SubClassOf 'is encoded in' some 'R language'
''Biobase'' SubClassOf 'software'
''Biobase'' SubClassOf 'R software'
http://edamontology.org/data_0886
Structure alignment
'Structure alignment' SubClassOf 'has topic' some 'Structure comparison'
http://edamontology.org/data_0885
Structure database search results
'Structure database search results' SubClassOf 'Obsolete concept (EDAM)'
'Structure database search results' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000088
CHP binary format
'CHP binary format' SubClassOf 'is published by' value 'Affymetrix'
http://www.ebi.ac.uk/efo/swo/SWO_0000086
'CGHcall'
''CGHcall'' SubClassOf 'software'
''CGHcall'' SubClassOf 'implements' some 'CBS algorithm'
''CGHcall'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''CGHcall'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
''CGHcall'' SubClassOf 'is executed in' some 'data normalization'
''CGHcall'' SubClassOf 'is executed in' some 'averaging'
''CGHcall'' SubClassOf 'is encoded in' some 'R language'
''CGHcall'' SubClassOf 'is executed in' some 'descriptive statistical calculation'
''CGHcall'' SubClassOf 'R software'
http://edamontology.org/data_0889
Structural profile
'Structural profile' SubClassOf 'has topic' some 'Structure comparison'
'Structural profile' SubClassOf 'data'
'Structural profile' SubClassOf http://edamontology.org/data_0006
http://www.ebi.ac.uk/efo/swo/SWO_0000087
'CGHregions'
''CGHregions'' SubClassOf 'implements' some 'CBS algorithm'
''CGHregions'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''CGHregions'' SubClassOf 'software'
''CGHregions'' SubClassOf 'is encoded in' some 'R language'
''CGHregions'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
''CGHregions'' SubClassOf 'R software'
http://edamontology.org/data_0880
RNA secondary structure
'RNA secondary structure' SubClassOf 'has topic' some 'Nucleic acid structure analysis'
http://www.ebi.ac.uk/efo/swo/SWO_0000084
CEL binary format
'CEL binary format' SubClassOf 'is published by' value 'Affymetrix'
http://www.ebi.ac.uk/efo/swo/SWO_0000085
'CGHbase'
''CGHbase'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''CGHbase'' SubClassOf 'is executed in' some 'data normalization'
''CGHbase'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'R data frame'))
''CGHbase'' SubClassOf 'software'
''CGHbase'' SubClassOf 'is executed in' some 'averaging'
''CGHbase'' SubClassOf 'is encoded in' some 'R language'
''CGHbase'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000083
CDF binary format
'CDF binary format' SubClassOf 'is published by' value 'Affymetrix'
http://edamontology.org/data_0884
Tertiary structure record
'Tertiary structure record' SubClassOf 'Obsolete concept (EDAM)'
'Tertiary structure record' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000080
'CAMERA'
''CAMERA'' SubClassOf 'has specified data output' some
('CSV data set' and ('has format specification' some 'Textual format'))
''CAMERA'' SubClassOf 'is encoded in' some 'R language'
''CAMERA'' SubClassOf 'has specified data input' some
('LC-MS data' and ('has format specification' some 'data format specification'))
''CAMERA'' SubClassOf 'is executed in' some 'data annotation'
''CAMERA'' SubClassOf 'software'
''CAMERA'' SubClassOf 'R software'
http://edamontology.org/data_0883
Structure
'Structure' SubClassOf 'data'
'Structure' SubClassOf 'has topic' some 'Structure analysis'
'Structure' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_0882
Secondary structure alignment metadata (RNA)
'Secondary structure alignment metadata (RNA)' SubClassOf 'Obsolete concept (EDAM)'
'Secondary structure alignment metadata (RNA)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0899
Protein structural motifs and surfaces
'Protein structural motifs and surfaces' SubClassOf 'Obsolete concept (EDAM)'
'Protein structural motifs and surfaces' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000099
'ChemmineR'
''ChemmineR'' SubClassOf 'has specified data input' some
('data' and ('has format specification' some 'SDF format'))
''ChemmineR'' SubClassOf 'is encoded in' some 'R language'
''ChemmineR'' SubClassOf 'is executed in' some 'distance calculation'
''ChemmineR'' SubClassOf 'has specified data output' some
('Image' and ('has format specification' some 'image format'))
''ChemmineR'' SubClassOf 'software'
''ChemmineR'' SubClassOf 'implements' some 'Binning clustering method'
''ChemmineR'' SubClassOf 'has specified data output' some
('HTML report' and ('has format specification' some 'HTML'))
''ChemmineR'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000098
Category
'Category' SubClassOf 'has specified data output' some
('Heatmap' and ('has format specification' some 'image format'))
'Category' SubClassOf 'has specified data output' some 'Graph plot'
'Category' SubClassOf 'is encoded in' some 'R language'
'Category' SubClassOf 'software'
'Category' SubClassOf 'is executed in' some 'differential expression analysis'
'Category' SubClassOf 'has specified data input' some ('has format specification' only 'R data frame')
'Category' SubClassOf 'implements' some 'Category analysis'
'Category' SubClassOf 'is published by' value 'Bioconductor'
'Category' SubClassOf 'R software'
'Category' SubClassOf 'BioConductor Software'
http://edamontology.org/data_0891
Sequence-3D profile alignment
'Sequence-3D profile alignment' SubClassOf 'Obsolete concept (EDAM)'
'Sequence-3D profile alignment' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000096
CARMAweb
'CARMAweb' SubClassOf 'output of' some
('software publishing process' and ('has participant' value 'Institute for Genomics and Bioinformatics Graz University of Technology'))
http://edamontology.org/data_0895
Peptide annotation
'Peptide annotation' SubClassOf 'Obsolete concept (EDAM)'
'Peptide annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_0894
Amino acid annotation
'Amino acid annotation' SubClassOf 'Obsolete concept (EDAM)'
'Amino acid annotation' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/efo/swo/SWO_0000092
'CORREP'
''CORREP'' SubClassOf 'is executed in' some 'descriptive statistical calculation'
''CORREP'' SubClassOf 'has specified data output' some
('data' and ('has format specification' some 'R data frame'))
''CORREP'' SubClassOf 'has specified data input' some
('OMICS data' and ('has format specification' some 'R data frame'))
''CORREP'' SubClassOf 'is executed in' some 'differential expression analysis'
''CORREP'' SubClassOf 'is encoded in' some 'R language'
''CORREP'' SubClassOf 'software'
''CORREP'' SubClassOf 'R software'
http://www.ebi.ac.uk/efo/swo/SWO_0000090
'CMA'
''CMA'' SubClassOf 'is executed in' some 'descriptive statistical calculation'
''CMA'' SubClassOf 'implements' some ''CMA''
''CMA'' SubClassOf 'has specified data input' some
('Gene expression dataset' and ('has format specification' some 'data format specification'))
''CMA'' SubClassOf 'has specified data output' some
('Graph plot' and ('has format specification' some 'R data frame'))
''CMA'' SubClassOf 'is encoded in' some 'R language'
''CMA'' SubClassOf 'software'
''CMA'' SubClassOf 'R software'
http://edamontology.org/data_2601
Small molecule data
'Small molecule data' SubClassOf 'Obsolete concept (EDAM)'
'Small molecule data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2602
Genotype and phenotype data
'Genotype and phenotype data' SubClassOf 'Obsolete concept (EDAM)'
'Genotype and phenotype data' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2603
Microarray data
Gene expression data
'Gene expression data' SubClassOf 'has topic' some 'Gene expression'
'Gene expression data' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2600
Pathway or network
'Pathway or network' SubClassOf 'data'
'Pathway or network' SubClassOf 'has topic' some 'Molecular interactions, pathways and networks'
'Pathway or network' SubClassOf http://edamontology.org/data_0006
http://edamontology.org/data_2611
ICD identifier
'ICD identifier' SubClassOf 'is identifier of' some 'Disease report'
http://edamontology.org/data_2627
Molecular interaction ID
'Molecular interaction ID' SubClassOf 'Obsolete concept (EDAM)'
'Molecular interaction ID' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_2621
TAIR accession (protein)
'TAIR accession (protein)' SubClassOf 'is identifier of' some 'Sequence record'
http://edamontology.org/data_1306
Nucleosome exclusion sequences
'Nucleosome exclusion sequences' SubClassOf 'Obsolete concept (EDAM)'
'Nucleosome exclusion sequences' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1305
Nucleic acid features report (restriction sites)
'Nucleic acid features report (restriction sites)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (restriction sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1304
Nucleic acid features report (CpG island and isochore)
'Nucleic acid features report (CpG island and isochore)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (CpG island and isochore)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1303
Nucleic acid features (quadruplexes)
'Nucleic acid features (quadruplexes)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (quadruplexes)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1309
Gene features (exonic splicing enhancer)
'Gene features (exonic splicing enhancer)' SubClassOf 'Obsolete concept (EDAM)'
'Gene features (exonic splicing enhancer)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1308
Nucleic acid features report (matrix/scaffold attachment sites)
'Nucleic acid features report (matrix/scaffold attachment sites)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (matrix/scaffold attachment sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1307
Nucleic acid features report (splice sites)
'Nucleic acid features report (splice sites)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (splice sites)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1302
Nucleic acid features report (PolyA signal or site)
'Nucleic acid features report (PolyA signal or site)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (PolyA signal or site)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1301
Mobile genetic elements
'Mobile genetic elements' SubClassOf 'Obsolete concept (EDAM)'
'Mobile genetic elements' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1300
Gene and transcript structure (report)
'Gene and transcript structure (report)' SubClassOf 'Obsolete concept (EDAM)'
'Gene and transcript structure (report)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1315
Transcription factor binding sites
'Transcription factor binding sites' SubClassOf 'Obsolete concept (EDAM)'
'Transcription factor binding sites' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1314
Gene features (SECIS element)
'Gene features (SECIS element)' SubClassOf 'Obsolete concept (EDAM)'
'Gene features (SECIS element)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1313
Coding region
'Coding region' SubClassOf 'Obsolete concept (EDAM)'
'Coding region' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1312
Nucleic acid features report (promoters)
'Nucleic acid features report (promoters)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features report (promoters)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1311
Gene features report (operon)
'Gene features report (operon)' SubClassOf 'Obsolete concept (EDAM)'
'Gene features report (operon)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://edamontology.org/data_1310
Nucleic acid features (microRNA)
'Nucleic acid features (microRNA)' SubClassOf 'Obsolete concept (EDAM)'
'Nucleic acid features (microRNA)' SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/data/SWO_3000085
.sql
'.sql' SubClassOf 'Textual format'
http://www.ebi.ac.uk/swo/data/SWO_3000084
.mysql
'.mysql' SubClassOf 'Textual format'
http://www.ebi.ac.uk/swo/data/SWO_3000083
.mgf
'.mgf' SubClassOf 'Textual format'
http://www.ebi.ac.uk/swo/data/SWO_3000082
.csv
'.csv' SubClassOf 'Textual format'
http://www.ebi.ac.uk/swo/data/SWO_3000081
.bw
'.bw' SubClassOf 'data format specification'
http://www.ebi.ac.uk/swo/data/SWO_3000080
RIFF
'RIFF' SubClassOf 'data format specification'
http://www.ebi.ac.uk/swo/data/SWO_3000079
audio format
'audio format' SubClassOf 'data format specification'
http://www.ebi.ac.uk/swo/data/SWO_3000078
.zip
'.zip' SubClassOf 'data format specification'
http://www.ebi.ac.uk/swo/data/SWO_3000077
.gz
'.gz' SubClassOf 'data format specification'
http://www.ebi.ac.uk/swo/SWO_0000154
COBRA
'COBRA' SubClassOf 'software'
http://www.ebi.ac.uk/swo/SWO_0000153
VCell
'VCell' SubClassOf 'software'
http://www.ebi.ac.uk/swo/SWO_0000156
COBRA Toolbox
'COBRA Toolbox' SubClassOf 'COBRA'
http://www.ebi.ac.uk/swo/SWO_0000155
COBRApy
'COBRApy' SubClassOf 'COBRA'
http://edamontology.org/data_3668
Disease name
'Disease name' SubClassOf 'Name'
'Disease name' SubClassOf 'Disease identifier'
http://www.ebi.ac.uk/swo/SWO_0000158
libSBML
'libSBML' SubClassOf 'R software'
http://edamontology.org/data_3669
Training material
'Training material' SubClassOf 'Data'
http://www.ebi.ac.uk/swo/SWO_0000159
GNU Octave
'GNU Octave' SubClassOf 'programming language'
http://edamontology.org/data_3667
Disease identifier
'Disease identifier' SubClassOf 'Identifier (typed)'
'Disease identifier' SubClassOf 'Accession'
http://www.ebi.ac.uk/swo/SWO_0000152
iBioSim
'iBioSim' SubClassOf 'software'
http://www.ebi.ac.uk/swo/SWO_0000151
OS X
'OS X' SubClassOf 'Mac OS'
http://edamontology.org/data_3671
Text
'Text' SubClassOf 'Text data'
http://www.ebi.ac.uk/swo/SWO_0000161
S language
'S language' SubClassOf 'programming language'
http://www.ebi.ac.uk/swo/SWO_0000160
GWT
'GWT' SubClassOf 'programming language'
http://www.ebi.ac.uk/swo/SWO_0000162
Excel
'Excel' SubClassOf 'programming language'
http://edamontology.org/data_3670
Online course
'Online course' SubClassOf 'Training material'
http://edamontology.org/operation_3465
Correlation
'Correlation' SubClassOf 'Operation'
http://www.ebi.ac.uk/swo/SWO_0000149
Mac OS
'Mac OS' SubClassOf 'operating system'
http://www.ebi.ac.uk/swo/algorithm/SWO_4000006
ODE Algorithm
'ODE Algorithm' SubClassOf 'algorithm'
http://www.ebi.ac.uk/swo/algorithm/SWO_4000009
DAE Algorithm
'DAE Algorithm' SubClassOf 'algorithm'
http://www.ebi.ac.uk/swo/algorithm/SWO_4000008
Monte Carlo
'Monte Carlo' SubClassOf 'algorithm'
http://www.ebi.ac.uk/swo/algorithm/SWO_4000007
Gillespie's Stochastic Simulation Algorithm
'Gillespie's Stochastic Simulation Algorithm' SubClassOf 'algorithm'
http://www.ebi.ac.uk/swo/algorithm/SWO_4000010
PDE Algorithm
'PDE Algorithm' SubClassOf 'algorithm'
http://edamontology.org/data_3743
Ordination plot
'Ordination plot' SubClassOf 'Protein property'
'Ordination plot' SubClassOf 'Plot'
http://edamontology.org/data_3756
Localisation score
'Localisation score' SubClassOf 'Score'
http://edamontology.org/data_3757
Unimod ID
'Unimod ID' SubClassOf 'Protein modification ID'
http://edamontology.org/data_3759
ProteomeXchange ID
'ProteomeXchange ID' SubClassOf 'Experiment annotation ID'
http://edamontology.org/data_3753
Over-representation report
'Over-representation report' SubClassOf 'Report'
http://edamontology.org/data_3754
GO-term enrichment report
'GO-term enrichment report' SubClassOf 'Over-representation report'
http://edamontology.org/data_3768
Clustered gene expression profiles
'Clustered gene expression profiles' SubClassOf 'Gene expression data'
http://edamontology.org/data_3769
BRENDA ontology concept ID
'BRENDA ontology concept ID' SubClassOf 'Ontology concept ID'
http://edamontology.org/data_3779
Annotated text
'Annotated text' SubClassOf 'Text'
http://edamontology.org/data_3786
Query script
'Query script' SubClassOf 'Data'
http://edamontology.org/operation_3557
Imputation
'Imputation' SubClassOf 'Statistical calculation'
http://edamontology.org/operation_3559
Ontology visualisation
'Ontology visualisation' SubClassOf 'Visualisation'
http://edamontology.org/operation_3553
Image annotation
'Image annotation' SubClassOf 'Annotation'
http://edamontology.org/operation_3552
Microscope image visualisation
'Microscope image visualisation' SubClassOf 'Visualisation'
http://edamontology.org/operation_3566
Simulated gene expression data generation
'Simulated gene expression data generation' SubClassOf 'Modelling and simulation'
http://edamontology.org/operation_3561
Database comparison
'Database comparison' SubClassOf 'Mapping'
'Database comparison' SubClassOf 'Comparison'
http://edamontology.org/operation_3560
Maximum occurence analysis
'Maximum occurence analysis' SubClassOf 'Protein model validation'
http://edamontology.org/operation_3565
RNA-seq time series data analysis
'RNA-seq time series data analysis' SubClassOf 'RNA-Seq analysis'
http://edamontology.org/operation_3564
Chemical redundancy removal
'Chemical redundancy removal' SubClassOf 'Structure comparison'
http://edamontology.org/operation_3563
RNA-seq read count analysis
'RNA-seq read count analysis' SubClassOf 'RNA-Seq analysis'
http://edamontology.org/operation_3562
Network simulation
'Network simulation' SubClassOf 'Modelling and simulation'
http://edamontology.org/data_3707
Biodiversity report
'Biodiversity report' SubClassOf 'Ecological data'
'Biodiversity report' SubClassOf 'Report'
http://edamontology.org/data_3716
Biosafety report
'Biosafety report' SubClassOf 'Report'
http://edamontology.org/data_3717
Isolation report
'Isolation report' SubClassOf 'Report'
http://edamontology.org/data_3718
Pathogenicity report
'Pathogenicity report' SubClassOf 'Biosafety report'
http://edamontology.org/data_3719
Biosafety classification
'Biosafety classification' SubClassOf 'Biosafety report'
http://edamontology.org/data_3723
Morphology parameter
'Morphology parameter' SubClassOf 'Experimental measurement'
http://edamontology.org/data_3724
Cultivation parameter
'Cultivation parameter' SubClassOf 'Experimental measurement'
http://edamontology.org/data_3720
Geographic location
'Geographic location' SubClassOf 'Isolation report'
http://edamontology.org/data_3721
Isolation source
'Isolation source' SubClassOf 'Isolation report'
http://edamontology.org/data_3722
Physiology parameter
'Physiology parameter' SubClassOf 'Experimental measurement'
http://edamontology.org/data_3738
Beta diversity data
'Beta diversity data' SubClassOf 'Biodiversity report'
http://edamontology.org/data_3739
Gamma diversity data
'Gamma diversity data' SubClassOf 'Biodiversity report'
http://edamontology.org/data_3734
Lane identifier
'Lane identifier' SubClassOf 'Sequencing metadata name'
http://edamontology.org/data_3735
Run number
'Run number' SubClassOf 'Sequencing metadata name'
http://edamontology.org/data_3736
Ecological data
'Ecological data' SubClassOf 'Data'
http://edamontology.org/data_3737
Alpha diversity data
'Alpha diversity data' SubClassOf 'Biodiversity report'
http://edamontology.org/data_3732
Sequencing metadata name
'Sequencing metadata name' SubClassOf 'Name'
http://edamontology.org/data_3733
Flow cell identifier
'Flow cell identifier' SubClassOf 'Sequencing metadata name'
http://edamontology.org/data_3546
Image metadata
'Image metadata' SubClassOf 'Report'
http://edamontology.org/data_3558
Clinical trial report
'Clinical trial report' SubClassOf 'Report'
http://edamontology.org/data_3567
Reference sample report
'Reference sample report' SubClassOf 'Report'
http://edamontology.org/data_3568
Gene Expression Atlas Experiment ID
'Gene Expression Atlas Experiment ID' SubClassOf 'Experiment annotation ID'
http://edamontology.org/format_3551
nrrd
'nrrd' SubClassOf 'Textual format'
'nrrd' SubClassOf 'Image format'
http://edamontology.org/format_3554
R file format
'R file format' SubClassOf 'Textual format'
http://edamontology.org/format_3550
mhd
'mhd' SubClassOf 'Image format'
'mhd' SubClassOf 'Textual format'
http://edamontology.org/format_3556
MHTML
'MHTML' SubClassOf 'HTML'
http://edamontology.org/format_3555
SPSS
'SPSS' SubClassOf 'Textual format'
http://edamontology.org/format_3590
hdf5
'hdf5' SubClassOf 'binary format'
http://edamontology.org/format_3585
bed6
'bed6' SubClassOf 'bedstrict'
http://edamontology.org/format_3584
bedstrict
'bedstrict' SubClassOf 'BED format'
http://edamontology.org/format_3587
chrominfo
'chrominfo' SubClassOf 'BED format'
http://edamontology.org/format_3586
bed12
'bed12' SubClassOf 'bedstrict'
http://edamontology.org/format_3581
arff
'arff' SubClassOf 'Textual format'
http://edamontology.org/format_3580
rcc
'rcc' SubClassOf 'Textual format'
'rcc' SubClassOf 'Gene expression report format'
http://edamontology.org/format_3583
bedgraph
'bedgraph' SubClassOf 'Sequence annotation track format'
'bedgraph' SubClassOf 'Textual format'
http://edamontology.org/format_3582
afg
'afg' SubClassOf 'Sequence assembly format (text)'
'afg' SubClassOf 'Textual format'
http://edamontology.org/format_3589
csfasta
'csfasta' SubClassOf 'FASTA-like (text)'
'csfasta' SubClassOf 'Alignment format (text)'
http://edamontology.org/format_3588
customtrack
'customtrack' SubClassOf 'Textual format'
'customtrack' SubClassOf 'Sequence annotation track format'
http://edamontology.org/format_3578
IDAT
'IDAT' SubClassOf 'binary format'
'IDAT' SubClassOf 'Gene expression report format'
http://edamontology.org/format_3579
JPG
'JPG' SubClassOf 'Image format'
'JPG' SubClassOf 'binary format'
http://edamontology.org/format_3549
nii
'nii' SubClassOf 'Image format'
'nii' SubClassOf 'binary format'
http://edamontology.org/format_3548
DICOM format
'DICOM format' SubClassOf 'Image format'
'DICOM format' SubClassOf 'binary format'
http://edamontology.org/format_3547
Image format
'Image format' SubClassOf 'Format (by type of data)'
http://edamontology.org/format_3596
ppm
'ppm' SubClassOf 'binary format'
'ppm' SubClassOf 'Image format'
http://edamontology.org/format_3595
pcx
'pcx' SubClassOf 'binary format'
'pcx' SubClassOf 'Image format'
http://edamontology.org/format_3598
xbm
'xbm' SubClassOf 'Image format'
'xbm' SubClassOf 'binary format'
http://edamontology.org/format_3597
psd
'psd' SubClassOf 'binary format'
'psd' SubClassOf 'Image format'
http://edamontology.org/format_3592
bmp
'bmp' SubClassOf 'Image format'
'bmp' SubClassOf 'binary format'
http://edamontology.org/format_3591
tiff
'tiff' SubClassOf 'binary format'
'tiff' SubClassOf 'Image format'
http://edamontology.org/format_3594
pcd
'pcd' SubClassOf 'Image format'
'pcd' SubClassOf 'binary format'
http://edamontology.org/format_3593
im
'im' SubClassOf 'Image format'
'im' SubClassOf 'binary format'
http://edamontology.org/format_3599
xpm
'xpm' SubClassOf 'binary format'
'xpm' SubClassOf 'Image format'
http://edamontology.org/operation_0004
Operation
http://edamontology.org/topic_3656
Immunoprecipitation experiment
'Immunoprecipitation experiment' SubClassOf 'Laboratory techniques'
http://edamontology.org/topic_3674
Methylated DNA immunoprecipitation
'Methylated DNA immunoprecipitation' SubClassOf 'Immunoprecipitation experiment'
http://edamontology.org/topic_3673
Whole genome sequencing
'Whole genome sequencing' SubClassOf 'Sequencing'
http://edamontology.org/topic_3679
Animal study
'Animal study' SubClassOf 'Laboratory animal science'
'Animal study' SubClassOf 'Experimental design and studies'
http://edamontology.org/topic_3678
Experimental design and studies
'Experimental design and studies' SubClassOf 'Topic'
http://edamontology.org/topic_3676
Exome sequencing
'Exome sequencing' SubClassOf 'Sequencing'
http://edamontology.org/topic_3697
Microbial ecology
'Microbial ecology' SubClassOf 'Microbiology'
'Microbial ecology' SubClassOf 'Ecology'
http://edamontology.org/operation_3628
Chromatographic alignment
'Chromatographic alignment' SubClassOf 'Spectral analysis'
http://edamontology.org/operation_3627
Mass spectra calibration
'Mass spectra calibration' SubClassOf 'Spectral analysis'
http://edamontology.org/operation_3625
Relation inference
'Relation inference' SubClassOf 'Text mining'
http://edamontology.org/format_3790
SPARQL
'SPARQL' SubClassOf 'Textual format'
http://edamontology.org/operation_3659
Regression analysis
'Regression analysis' SubClassOf 'Statistical calculation'
http://edamontology.org/operation_3658
Statistical inference
'Statistical inference' SubClassOf 'Statistical calculation'
http://edamontology.org/format_3765
KNIME datatable format
'KNIME datatable format' SubClassOf 'Workflow format'
http://edamontology.org/format_3764
idXML
'idXML' SubClassOf 'Mass spectrometry data format'
'idXML' SubClassOf 'XML'
http://edamontology.org/operation_3666
Molecular surface comparison
'Molecular surface comparison' SubClassOf 'Structure comparison'
'Molecular surface comparison' SubClassOf 'Molecular surface analysis'
http://edamontology.org/operation_3660
Metabolic network modelling
'Metabolic network modelling' SubClassOf 'Network simulation'
http://edamontology.org/operation_3664
Statistical modelling
'Statistical modelling' SubClassOf 'Statistical calculation'
http://edamontology.org/operation_3663
Homology-based gene prediction
'Homology-based gene prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_3662
Ab-initio gene prediction
'Ab-initio gene prediction' SubClassOf 'Gene prediction'
http://edamontology.org/operation_3661
SNP annotation
'SNP annotation' SubClassOf 'Sequence annotation'
http://edamontology.org/format_3750
YAML
'YAML' SubClassOf 'Format'
http://edamontology.org/format_3752
CSV
'CSV' SubClassOf 'DSV'
http://edamontology.org/format_3751
DSV
'DSV' SubClassOf 'Textual format'
http://edamontology.org/format_3758
SEQUEST .out file
'SEQUEST .out file' SubClassOf 'Mass spectrometry data format'
'SEQUEST .out file' SubClassOf 'Textual format'
http://edamontology.org/operation_3635
Labeled quantification
'Labeled quantification' SubClassOf 'Protein quantification'
http://edamontology.org/operation_3634
Label-free quantification
'Label-free quantification' SubClassOf 'Protein quantification'
http://edamontology.org/operation_3633
Retention times prediction
'Retention times prediction' SubClassOf 'Calculation'
http://edamontology.org/operation_3632
Isotopic distributions calculation
'Isotopic distributions calculation' SubClassOf 'Calculation'
http://edamontology.org/operation_3639
iTRAQ
'iTRAQ' SubClassOf 'Labeled quantification'
http://edamontology.org/operation_3638
SILAC
'SILAC' SubClassOf 'Labeled quantification'
http://edamontology.org/operation_3637
Spectral counting
'Spectral counting' SubClassOf 'Label-free quantification'
http://edamontology.org/operation_3636
MRM/SRM
'MRM/SRM' SubClassOf 'Protein quantification'
http://edamontology.org/operation_3631
Peptide identification
'Peptide identification' SubClassOf 'Spectral analysis'
http://edamontology.org/operation_3630
Protein quantification
'Protein quantification' SubClassOf 'Spectral analysis'
http://edamontology.org/format_3783
PubTator format
'PubTator format' SubClassOf 'Textual format'
'PubTator format' SubClassOf 'Annotated text format'
http://edamontology.org/format_3782
BioC
'BioC' SubClassOf 'XML'
'BioC' SubClassOf 'Annotated text format'
http://edamontology.org/format_3785
BioNLP Shared Task format
'BioNLP Shared Task format' SubClassOf 'Annotated text format'
'BioNLP Shared Task format' SubClassOf 'Textual format'
http://edamontology.org/format_3784
Open Annotation format
'Open Annotation format' SubClassOf 'Annotated text format'
'Open Annotation format' SubClassOf 'JSON-LD'
http://edamontology.org/format_3781
PubAnnotation format
'PubAnnotation format' SubClassOf 'JSON'
'PubAnnotation format' SubClassOf 'Annotated text format'
http://edamontology.org/format_3780
Annotated text format
'Annotated text format' SubClassOf 'Format (by type of data)'
http://edamontology.org/operation_3629
Deisotoping
'Deisotoping' SubClassOf 'Spectral analysis'
http://edamontology.org/format_3787
Query language
'Query language' SubClassOf 'Format (by type of data)'
http://edamontology.org/format_3789
XQuery
'XQuery' SubClassOf 'Textual format'
http://edamontology.org/format_3788
SQL
'SQL' SubClassOf 'Textual format'
http://edamontology.org/operation_3646
Peptide database search
'Peptide database search' SubClassOf 'Peptide identification'
'Peptide database search' SubClassOf 'Database search'
http://edamontology.org/operation_3645
PTM identification
'PTM identification' SubClassOf 'Peptide identification'
http://edamontology.org/operation_3644
de Novo sequencing
'de Novo sequencing' SubClassOf 'Sequence generation (protein)'
'de Novo sequencing' SubClassOf 'Peptide identification'
http://edamontology.org/operation_3643
Tag-based peptide identification
'Tag-based peptide identification' SubClassOf 'Peptide identification'
http://edamontology.org/operation_3649
Target-Decoy
'Target-Decoy' SubClassOf 'Validation of peptide-spectrum matches'
http://edamontology.org/operation_3648
Validation of peptide-spectrum matches
'Validation of peptide-spectrum matches' SubClassOf 'Validation'
'Validation of peptide-spectrum matches' SubClassOf 'Peptide database search'
http://edamontology.org/operation_3647
Blind peptide database search
'Blind peptide database search' SubClassOf 'Peptide database search'
http://edamontology.org/operation_3642
Dimethyl
'Dimethyl' SubClassOf 'Labeled quantification'
http://edamontology.org/operation_3641
TMT-tag
'TMT-tag' SubClassOf 'Labeled quantification'
http://edamontology.org/operation_3640
18O labeling
'18O labeling' SubClassOf 'Labeled quantification'
http://edamontology.org/format_3772
BioJSON (BioXSD)
'BioJSON (BioXSD)' SubClassOf 'Alignment format'
'BioJSON (BioXSD)' SubClassOf 'Raw sequence format'
'BioJSON (BioXSD)' SubClassOf 'Sequence record format'
'BioJSON (BioXSD)' SubClassOf 'JSON'
'BioJSON (BioXSD)' SubClassOf 'Sequence feature annotation format'
http://edamontology.org/format_3771
UniProtKB RDF
'UniProtKB RDF' SubClassOf 'RDF format'
'UniProtKB RDF' SubClassOf 'uniprotkb-like format'
http://edamontology.org/format_3774
BioJSON (Jalview)
'BioJSON (Jalview)' SubClassOf 'JSON'
'BioJSON (Jalview)' SubClassOf 'Alignment format'
'BioJSON (Jalview)' SubClassOf 'Sequence feature annotation format'
http://edamontology.org/format_3773
BioYAML
'BioYAML' SubClassOf 'Raw sequence format'
'BioYAML' SubClassOf 'Alignment format'
'BioYAML' SubClassOf 'Sequence feature annotation format'
'BioYAML' SubClassOf 'Sequence record format'
'BioYAML' SubClassOf 'YAML'
http://edamontology.org/format_3770
UniProtKB XML
'UniProtKB XML' SubClassOf 'uniprotkb-like format'
'UniProtKB XML' SubClassOf 'Sequence record format (XML)'
'UniProtKB XML' SubClassOf 'XML'
http://edamontology.org/format_3776
BTrack
'BTrack' SubClassOf 'Sequence annotation track format'
'BTrack' SubClassOf 'Sequence feature table format'
'BTrack' SubClassOf 'binary format'
http://edamontology.org/format_3775
GSuite
'GSuite' SubClassOf 'Textual format'
'GSuite' SubClassOf 'Sequence feature annotation format'
http://edamontology.org/format_3777
MCPD
'MCPD' SubClassOf 'Textual format'
'MCPD' SubClassOf 'Biodiversity data format'
http://edamontology.org/operation_3695
Filtering
'Filtering' SubClassOf 'Data handling'
http://edamontology.org/operation_3694
Mass spectrum visualisation
'Mass spectrum visualisation' SubClassOf 'Visualisation'
http://edamontology.org/operation_3677
Differential binding analysis
'Differential binding analysis' SubClassOf 'Nucleic acid sequence analysis'
http://edamontology.org/operation_3675
Variant filtering
'Variant filtering' SubClassOf 'Sequencing quality control'
http://edamontology.org/operation_3672
Gene functional annotation
'Gene functional annotation' SubClassOf 'Sequence annotation'
http://edamontology.org/operation_3680
RNA-Seq analysis
'RNA-Seq analysis' SubClassOf 'Nucleic acid sequence analysis'
http://www.ebi.ac.uk/swo/license/SWO_1000143
Permission required for commercial use
'Permission required for commercial use' SubClassOf 'Commercial use only'
http://www.ebi.ac.uk/swo/license/SWO_1000144
Permission required for derivative work
'Permission required for derivative work' SubClassOf 'Restrictions on derivative software'
http://www.ebi.ac.uk/swo/license/SWO_1000145
Xenbase Academic Conditions of Use
'Xenbase Academic Conditions of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000146
RIKEN Copyright
'RIKEN Copyright' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000147
Design Science License
'Design Science License' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000148
University of Concordia Terms of Use
'University of Concordia Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000149
OME Software Conditons of Use
'OME Software Conditons of Use' SubClassOf 'Vendor-specific License'
'OME Software Conditons of Use' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000140
Non-Commercial No-Fee License
'Non-Commercial No-Fee License' SubClassOf 'license'
http://www.ebi.ac.uk/swo/license/SWO_1000141
DrugBank Academic License
'DrugBank Academic License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000142
UCSC Genome Browser Commercial Software License
'UCSC Genome Browser Commercial Software License' SubClassOf 'Fee-Based Commercial License'
'UCSC Genome Browser Commercial Software License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000129
RegenBase Terms of Use
'RegenBase Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000132
UCUM Terms of Use
'UCUM Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000133
UMLS Metathesaurus License
'UMLS Metathesaurus License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000134
MHAS Data Policy
'MHAS Data Policy' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000135
ALFRED Copyright
'ALFRED Copyright' SubClassOf 'Vendor-specific License'
'ALFRED Copyright' SubClassOf 'License without restrictions on derivatives'
'ALFRED Copyright' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000136
Commercial use only
'Commercial use only' SubClassOf 'Usage restricted'
http://www.ebi.ac.uk/swo/license/SWO_1000137
Fee-Based Commercial License
'Fee-Based Commercial License' SubClassOf 'license'
http://www.ebi.ac.uk/swo/license/SWO_1000138
BRENDA License
'BRENDA License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000139
TCGA Data Use Certification
'TCGA Data Use Certification' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000130
SABIO-RK Non-Commercial Purpose License
'SABIO-RK Non-Commercial Purpose License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000131
Terms of Use for EMBL-EBI Services
'Terms of Use for EMBL-EBI Services' SubClassOf 'License without restrictions on derivatives'
'Terms of Use for EMBL-EBI Services' SubClassOf 'GNU Project Free License Type'
'Terms of Use for EMBL-EBI Services' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000150
ImmPort Conditions of Use
'ImmPort Conditions of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000100
ODC-By v1.0
'ODC-By v1.0' SubClassOf 'Open Data Commons'
'ODC-By v1.0' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000101
PDDL v1.0
'PDDL v1.0' SubClassOf 'GNU GPL Compatible License Type'
'PDDL v1.0' SubClassOf 'Open Data Commons'
'PDDL v1.0' SubClassOf 'License without restrictions on derivatives'
http://www.ebi.ac.uk/swo/license/SWO_1000102
obsolete_Modified BSD License
'obsolete_Modified BSD License' SubClassOf 'Obsolete concept (EDAM)'
http://www.ebi.ac.uk/swo/license/SWO_1000103
Vendor-specific License
'Vendor-specific License' SubClassOf 'license'
http://www.ebi.ac.uk/swo/license/SWO_1000104
NIDA NIH Data Access Policy
'NIDA NIH Data Access Policy' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000105
Addgene Terms of Use
'Addgene Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000106
CAS Information Use Policy
'CAS Information Use Policy' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000118
LOINC RELMA Terms of Use
'LOINC RELMA Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000119
MIACA Full Copyright
'MIACA Full Copyright' SubClassOf 'Open source software license'
'MIACA Full Copyright' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000121
NIH Genomic Data Sharing Policy
'NIH Genomic Data Sharing Policy' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000122
Facebase Data Access Policy
'Facebase Data Access Policy' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000123
ORCID Terms of Use
'ORCID Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000124
PPDB Academic License
'PPDB Academic License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000125
SciCrunch Terms and Conditions
'SciCrunch Terms and Conditions' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000126
ProDom Commercial License
'ProDom Commercial License' SubClassOf 'Vendor-specific License'
'ProDom Commercial License' SubClassOf 'Fee-Based Commercial License'
http://www.ebi.ac.uk/swo/license/SWO_1000127
SBGN Open License with Attribution
'SBGN Open License with Attribution' SubClassOf 'Vendor-specific License'
'SBGN Open License with Attribution' SubClassOf 'License without restrictions on derivatives'
'SBGN Open License with Attribution' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000128
NLM Open License with Attribution
'NLM Open License with Attribution' SubClassOf 'GNU Project Free License Type'
'NLM Open License with Attribution' SubClassOf 'License without restrictions on derivatives'
'NLM Open License with Attribution' SubClassOf 'Vendor-specific License'
http://edamontology.org/topic_3557
Protein interaction experiment
'Protein interaction experiment' SubClassOf 'Laboratory techniques'
http://www.ebi.ac.uk/swo/license/SWO_1000120
ORCID MIT-Style License (MIT)
'ORCID MIT-Style License (MIT)' SubClassOf 'Vendor-specific License'
'ORCID MIT-Style License (MIT)' SubClassOf 'GNU GPL Compatible License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000107
CellFinder Copyright
'CellFinder Copyright' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000108
LINCS Data Policy
'LINCS Data Policy' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000109
GeneNetwork Conditions of Use
'GeneNetwork Conditions of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000110
GMD Academic License
'GMD Academic License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000111
GeneProf Academic License
'GeneProf Academic License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000112
European Medicines Agency Copyright
'European Medicines Agency Copyright' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000113
miRTaBase Data License
'miRTaBase Data License' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000114
GBIF Data Sharing Agreement
'GBIF Data Sharing Agreement' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000115
IUPAC/InChI-Trust InChI Licence No. 1.0
'IUPAC/InChI-Trust InChI Licence No. 1.0' SubClassOf 'GNU Project Free License Type'
'IUPAC/InChI-Trust InChI Licence No. 1.0' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000116
Labome Copyright
'Labome Copyright' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000117
CTD Legal Notice and Terms of Data Use
'CTD Legal Notice and Terms of Data Use' SubClassOf 'Vendor-specific License'
http://edamontology.org/topic_3569
Applied mathematics
'Applied mathematics' SubClassOf 'Mathematics'
http://edamontology.org/topic_3572
Data quality management
'Data quality management' SubClassOf 'Data management'
http://edamontology.org/topic_3571
Data governance
'Data governance' SubClassOf 'Data management'
http://edamontology.org/topic_3570
Pure mathematics
'Pure mathematics' SubClassOf 'Mathematics'
http://edamontology.org/topic_3576
Medical biotechnology
'Medical biotechnology' SubClassOf 'Biotechnology'
http://edamontology.org/topic_3575
Tropical medicine
'Tropical medicine' SubClassOf 'Medicine'
http://edamontology.org/topic_3574
Human genetics
'Human genetics' SubClassOf 'Genetics'
http://edamontology.org/topic_3573
Freshwater biology
'Freshwater biology' SubClassOf 'Biology'
http://edamontology.org/topic_3577
Personalised medicine
'Personalised medicine' SubClassOf 'Medicine'
http://edamontology.org/format_1915
Format
http://edamontology.org/format_3729
dbGaP format
'dbGaP format' SubClassOf 'Textual format'
http://edamontology.org/format_3728
LocARNA PP
'LocARNA PP' SubClassOf 'Textual format'
http://edamontology.org/format_3725
SBOL
'SBOL' SubClassOf 'XML'
http://edamontology.org/format_3727
OME-TIFF
'OME-TIFF' SubClassOf 'Image format'
'OME-TIFF' SubClassOf 'binary format'
http://edamontology.org/format_3726
PMML
'PMML' SubClassOf 'XML'
http://edamontology.org/format_3714
MaxQuant APL peaklist format
'MaxQuant APL peaklist format' SubClassOf 'Mass spectrometry data format'
'MaxQuant APL peaklist format' SubClassOf 'Textual format'
http://edamontology.org/format_3713
Mascot .dat file
'Mascot .dat file' SubClassOf 'Mass spectrometry data format'
'Mascot .dat file' SubClassOf 'Textual format'
http://edamontology.org/format_3710
WIFF format
'WIFF format' SubClassOf 'Mass spectrometry data format'
'WIFF format' SubClassOf 'binary format'
http://edamontology.org/format_3712
Thermo RAW
'Thermo RAW' SubClassOf 'binary format'
'Thermo RAW' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3711
X!Tandem XML
'X!Tandem XML' SubClassOf 'binary format'
'X!Tandem XML' SubClassOf 'Textual format'
'X!Tandem XML' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3747
protXML
'protXML' SubClassOf 'Mass spectrometry data format'
'protXML' SubClassOf 'XML'
http://edamontology.org/format_3746
BIOM format
'BIOM format' SubClassOf 'Textual format'
'BIOM format' SubClassOf 'Biodiversity data format'
http://edamontology.org/format_3749
JSON-LD
'JSON-LD' SubClassOf 'RDF format'
'JSON-LD' SubClassOf 'JSON'
http://edamontology.org/format_3748
Linked data format
'Linked data format' SubClassOf 'Format (by type of data)'
http://edamontology.org/format_3706
Biodiversity data format
'Biodiversity data format' SubClassOf 'Format (by type of data)'
http://edamontology.org/format_3709
GCT/Res format
'GCT/Res format' SubClassOf 'Textual format'
'GCT/Res format' SubClassOf 'Gene expression report format'
http://edamontology.org/format_3708
ABCD format
'ABCD format' SubClassOf 'Biodiversity data format'
http://edamontology.org/format_3702
MSF
'MSF' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3701
Sequin format
'Sequin format' SubClassOf 'Sequence feature table format (text)'
http://edamontology.org/format_3700
Tabix index file format
'Tabix index file format' SubClassOf 'Data index format'
http://edamontology.org/operation_3731
Sample comparison
'Sample comparison' SubClassOf 'Comparison'
http://edamontology.org/operation_3730
Cross-assembly
'Cross-assembly' SubClassOf 'Sequence assembly'
http://edamontology.org/format_3684
PRIDE XML
'PRIDE XML' SubClassOf 'XML'
'PRIDE XML' SubClassOf 'Experiment annotation format'
'PRIDE XML' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3683
qcML
'qcML' SubClassOf 'Mass spectrometry data format'
'qcML' SubClassOf 'XML'
'qcML' SubClassOf 'Experiment annotation format'
http://edamontology.org/format_3686
COMBINE OMEX
'COMBINE OMEX' SubClassOf 'binary format'
'COMBINE OMEX' SubClassOf 'Biological pathway or network format'
'COMBINE OMEX' SubClassOf 'Experiment annotation format'
http://edamontology.org/format_3685
SED-ML
'SED-ML' SubClassOf 'XML'
'SED-ML' SubClassOf 'Experiment annotation format'
http://edamontology.org/format_3682
imzML
'imzML' SubClassOf 'Mass spectrometry data format'
'imzML' SubClassOf 'XML'
'imzML' SubClassOf 'binary format'
http://edamontology.org/format_3681
mzTab
'mzTab' SubClassOf 'Mass spectrometry data format'
'mzTab' SubClassOf 'Textual format'
http://edamontology.org/format_3688
SBtab
'SBtab' SubClassOf 'Biological pathway or network format'
'SBtab' SubClassOf 'Textual format'
http://edamontology.org/format_3687
ISA-TAB
'ISA-TAB' SubClassOf 'Gene expression report format'
'ISA-TAB' SubClassOf 'Textual format'
'ISA-TAB' SubClassOf 'Experiment annotation format'
http://edamontology.org/format_3689
BCML
'BCML' SubClassOf 'XML'
'BCML' SubClassOf 'Biological pathway or network format'
http://edamontology.org/operation_3745
Ancestral reconstruction
'Ancestral reconstruction' SubClassOf 'Phylogenetic tree analysis'
http://edamontology.org/operation_3744
Multiple sample visualisation
'Multiple sample visualisation' SubClassOf 'Visualisation'
http://edamontology.org/data_0006
Data
http://edamontology.org/operation_3742
Differential gene expression analysis
'Differential gene expression analysis' SubClassOf 'Comparison'
http://edamontology.org/operation_3741
Differential protein expression analysis
'Differential protein expression analysis' SubClassOf 'Differential gene expression analysis'
'Differential protein expression analysis' SubClassOf 'Protein comparison'
http://edamontology.org/operation_3715
Metabolic labeling
'Metabolic labeling' SubClassOf 'Labeled quantification'
http://edamontology.org/format_3696
PS
'PS' SubClassOf 'Textual format'
http://edamontology.org/format_3691
BEL
'BEL' SubClassOf 'Textual format'
http://edamontology.org/format_3690
BDML
'BDML' SubClassOf 'XML'
http://edamontology.org/format_3693
AGP
'AGP' SubClassOf 'Textual format'
'AGP' SubClassOf 'Sequence assembly format'
http://edamontology.org/format_3692
SBGN-ML
'SBGN-ML' SubClassOf 'XML'
'SBGN-ML' SubClassOf 'Biological pathway or network format'
http://edamontology.org/format_3699
VDB
'VDB' SubClassOf 'binary format'
http://edamontology.org/format_3698
SRA format
'SRA format' SubClassOf 'binary format'
http://edamontology.org/operation_3778
Text annotation
'Text annotation' SubClassOf 'Annotation'
'Text annotation' SubClassOf 'Analysis'
http://www.ebi.ac.uk/swo/license/SWO_1000090
CC BY-NC-SA 4.0
'CC BY-NC-SA 4.0' SubClassOf 'Creative Commons'
'CC BY-NC-SA 4.0' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000099
FlowRepository Open Access Terms of Use
'FlowRepository Open Access Terms of Use' SubClassOf 'GNU Project Free License Type'
'FlowRepository Open Access Terms of Use' SubClassOf 'License without restrictions on derivatives'
'FlowRepository Open Access Terms of Use' SubClassOf 'Vendor-specific License'
http://www.ebi.ac.uk/swo/license/SWO_1000091
CC BY-SA 2.1 JP
'CC BY-SA 2.1 JP' SubClassOf 'GNU Project Free License Type'
'CC BY-SA 2.1 JP' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000092
CC BY-SA 3.0
'CC BY-SA 3.0' SubClassOf 'Creative Commons'
'CC BY-SA 3.0' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000093
CC BY-SA 3.0 US
'CC BY-SA 3.0 US' SubClassOf 'Creative Commons'
'CC BY-SA 3.0 US' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000094
CC BY-SA 4.0
'CC BY-SA 4.0' SubClassOf 'Creative Commons'
'CC BY-SA 4.0' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000095
Open Data Commons
'Open Data Commons' SubClassOf 'license'
http://www.ebi.ac.uk/swo/license/SWO_1000096
ODbL v1.0
'ODbL v1.0' SubClassOf 'GNU Project Free License Type'
'ODbL v1.0' SubClassOf 'Open Data Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000097
DbCL v1.0
'DbCL v1.0' SubClassOf 'Open Data Commons'
'DbCL v1.0' SubClassOf 'GNU Project Free License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000098
EMBLEM ELM Academic License
'EMBLEM ELM Academic License' SubClassOf 'Vendor-specific License'
http://edamontology.org/operation_3755
PTM localisation
'PTM localisation' SubClassOf 'PTM identification'
http://edamontology.org/format_3665
K-mer countgraph
'K-mer countgraph' SubClassOf 'Graph format'
'K-mer countgraph' SubClassOf 'binary format'
http://edamontology.org/operation_3767
Protein identification
'Protein identification' SubClassOf 'Protein analysis'
'Protein identification' SubClassOf 'Spectral analysis'
http://edamontology.org/operation_3766
Weighted correlation network analysis
'Weighted correlation network analysis' SubClassOf 'Pathway or network analysis'
http://edamontology.org/operation_3763
Service invocation
'Service invocation' SubClassOf 'Service management'
http://edamontology.org/operation_3762
Service composition
'Service composition' SubClassOf 'Service management'
http://edamontology.org/operation_3761
Service discovery
'Service discovery' SubClassOf 'Service management'
http://edamontology.org/operation_3760
Service management
'Service management' SubClassOf 'Operation'
http://edamontology.org/format_3651
MGF
'MGF' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3650
netCDF
'netCDF' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3653
pkl
'pkl' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3652
dta
'dta' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3655
pepXML
'pepXML' SubClassOf 'Mass spectrometry data format'
'pepXML' SubClassOf 'XML'
http://edamontology.org/format_3654
mzXML
'mzXML' SubClassOf 'Mass spectrometry data format'
http://edamontology.org/format_3657
GPML
'GPML' SubClassOf 'XML'
'GPML' SubClassOf 'Biological pathway or network format'
http://www.ebi.ac.uk/swo/license/SWO_1000066
Attribution not required
'Attribution not required' SubClassOf 'Attribution clause'
http://www.ebi.ac.uk/swo/license/SWO_1000067
CC BY 2.0 UK
'CC BY 2.0 UK' SubClassOf 'GNU GPL Compatible License Type'
'CC BY 2.0 UK' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000068
GNU LGPL v3
'GNU LGPL v3' SubClassOf 'GNU GPL Compatible License Type'
'GNU LGPL v3' SubClassOf 'GNU LGPL'
http://www.ebi.ac.uk/swo/license/SWO_1000069
GNU AGPL
'GNU AGPL' SubClassOf 'license'
http://www.ebi.ac.uk/swo/license/SWO_1000064
http://www.ebi.ac.uk/swo/license/SWO_1000064 SubClassOf http://www.w3.org/2002/07/owl#DeprecatedClass
http://www.ebi.ac.uk/swo/license/SWO_1000065
CC BY 4.0
'CC BY 4.0' SubClassOf 'Creative Commons'
'CC BY 4.0' SubClassOf 'GNU GPL Compatible License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000088
CC BY-NC-SA 3.0 US
'CC BY-NC-SA 3.0 US' SubClassOf 'Non-Commercial No-Fee License'
'CC BY-NC-SA 3.0 US' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000089
CC BY-NC-SA 2.5 IN
'CC BY-NC-SA 2.5 IN' SubClassOf 'Non-Commercial No-Fee License'
'CC BY-NC-SA 2.5 IN' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000080
CC BY-NC 4.0
'CC BY-NC 4.0' SubClassOf 'Creative Commons'
'CC BY-NC 4.0' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000081
CC BY-NC-ND 3.0
'CC BY-NC-ND 3.0' SubClassOf 'Creative Commons'
'CC BY-NC-ND 3.0' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000083
CC BY-NC-ND 2.5
'CC BY-NC-ND 2.5' SubClassOf 'Creative Commons'
'CC BY-NC-ND 2.5' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000084
CC BY-NC-ND 2.5 CH
'CC BY-NC-ND 2.5 CH' SubClassOf 'Non-Commercial No-Fee License'
'CC BY-NC-ND 2.5 CH' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000085
CC BY-NC-ND 4.0
'CC BY-NC-ND 4.0' SubClassOf 'Creative Commons'
'CC BY-NC-ND 4.0' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000086
CC BY-NC-SA 2.5
'CC BY-NC-SA 2.5' SubClassOf 'Creative Commons'
'CC BY-NC-SA 2.5' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000087
CC BY-NC-SA 3.0
'CC BY-NC-SA 3.0' SubClassOf 'Non-Commercial No-Fee License'
'CC BY-NC-SA 3.0' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000077
CC BY-ND 3.0
'CC BY-ND 3.0' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000078
CC BY-ND 4.0
'CC BY-ND 4.0' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000079
CC BY-NC 3.0
'CC BY-NC 3.0' SubClassOf 'Creative Commons'
'CC BY-NC 3.0' SubClassOf 'Non-Commercial No-Fee License'
http://www.ebi.ac.uk/swo/license/SWO_1000070
GNU AGPL v3
'GNU AGPL v3' SubClassOf 'GNU AGPL'
'GNU AGPL v3' SubClassOf 'GNU GPL Compatible License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000071
GNU LGPL v2.1
'GNU LGPL v2.1' SubClassOf 'GNU LGPL'
'GNU LGPL v2.1' SubClassOf 'GNU GPL Compatible License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000072
CC BY 2.1 JP
'CC BY 2.1 JP' SubClassOf 'Creative Commons'
'CC BY 2.1 JP' SubClassOf 'GNU GPL Compatible License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000073
CC BY 2.5
'CC BY 2.5' SubClassOf 'Creative Commons'
'CC BY 2.5' SubClassOf 'GNU GPL Compatible License Type'
http://www.ebi.ac.uk/swo/license/SWO_1000074
CC BY 3.0 AU
'CC BY 3.0 AU' SubClassOf 'GNU GPL Compatible License Type'
'CC BY 3.0 AU' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000075
CC BY 3.0
'CC BY 3.0' SubClassOf 'GNU GPL Compatible License Type'
'CC BY 3.0' SubClassOf 'Creative Commons'
http://www.ebi.ac.uk/swo/license/SWO_1000076
CC BY 3.0 US
'CC BY 3.0 US' SubClassOf 'Creative Commons'
'CC BY 3.0 US' SubClassOf 'GNU GPL Compatible License Type'
http://edamontology.org/format_3608
qualsolexa
'qualsolexa' SubClassOf 'qual'
'qualsolexa' SubClassOf 'FASTQ-solexa'
http://edamontology.org/format_3607
qual
'qual' SubClassOf 'Sequence quality report format (text)'
'qual' SubClassOf 'FASTQ-like format (text)'
http://edamontology.org/format_3609
qualillumina
'qualillumina' SubClassOf 'FASTQ-illumina'
'qualillumina' SubClassOf 'qual'
http://edamontology.org/format_3604
SVG
'SVG' SubClassOf 'Image format'
'SVG' SubClassOf 'XML'
http://edamontology.org/format_3603
PNG
'PNG' SubClassOf 'binary format'
'PNG' SubClassOf 'Image format'
http://edamontology.org/format_3606
Sequence quality report format (text)
'Sequence quality report format (text)' SubClassOf 'Format (by type of data)'
'Sequence quality report format (text)' SubClassOf 'Textual format'
http://edamontology.org/format_3605
rast
'rast' SubClassOf 'binary format'
'rast' SubClassOf 'Image format'
http://edamontology.org/format_3600
rgb
'rgb' SubClassOf 'binary format'
'rgb' SubClassOf 'Image format'
http://edamontology.org/format_3602
pgm
'pgm' SubClassOf 'Image format'
'pgm' SubClassOf 'binary format'
http://edamontology.org/format_3601
pbm
'pbm' SubClassOf 'Image format'
'pbm' SubClassOf 'binary format'
http://edamontology.org/format_3620
xlsx
'xlsx' SubClassOf 'binary format'
'xlsx' SubClassOf 'Document format'
http://edamontology.org/format_3626
MAT
'MAT' SubClassOf 'Matrix format'
http://edamontology.org/format_3622
Gemini SQLite format
'Gemini SQLite format' SubClassOf 'Sequence variation annotation format'
'Gemini SQLite format' SubClassOf 'SQLite format'
http://edamontology.org/format_3621
SQLite format
'SQLite format' SubClassOf 'binary format'
http://edamontology.org/format_3624
snpeffdb
'snpeffdb' SubClassOf 'Index format'
http://edamontology.org/format_3623
Index format
'Index format' SubClassOf 'Format (by type of data)'
'Index format' SubClassOf 'binary format'
http://edamontology.org/format_3619
sif
'sif' SubClassOf 'Biological pathway or network format'
http://edamontology.org/format_3618
xgmml
'xgmml' SubClassOf 'Graph format'
http://edamontology.org/format_3615
bgzip
'bgzip' SubClassOf 'Image format'
'bgzip' SubClassOf 'binary format'
http://edamontology.org/format_3614
ENCODE broad peak format
'ENCODE broad peak format ' SubClassOf 'ENCODE peak format'
http://edamontology.org/format_3617
Graph format
'Graph format' SubClassOf 'Format (by type of data)'
http://edamontology.org/format_3616
tabix
'tabix' SubClassOf 'Image format'
'tabix' SubClassOf 'binary format'
http://edamontology.org/format_3611
qual454
'qual454' SubClassOf 'qual'
http://edamontology.org/format_3610
qualsolid
'qualsolid' SubClassOf 'qual'
http://edamontology.org/format_3613
ENCODE narrow peak format
'ENCODE narrow peak format' SubClassOf 'ENCODE peak format'
http://edamontology.org/format_3612
ENCODE peak format
'ENCODE peak format' SubClassOf 'bed6'
http://edamontology.org/operation_3705
Isotope-coded protein label
'Isotope-coded protein label' SubClassOf 'Labeled quantification'
http://edamontology.org/operation_3704
Ion counting
'Ion counting' SubClassOf 'Label-free quantification'
http://edamontology.org/operation_3703
Reference identification
'Reference identification' SubClassOf 'Genetic variation analysis'
http://edamontology.org/correlation_3465
Correlation
'Correlation' SubClassOf 'Analysis'
'Correlation' SubClassOf 'has topic' some 'Proteomics'
http://www.w3.org/2002/07/owl#Thing