WP
2015-02-02
http://vocabularies.wikipathways.org/wp#
wp
Andra Waagmeester
Maastricht University
UtilityClass
Author
Definition: An author is creator, editor, or curator of a pathway. The author is known by a unique WikiPathways username.
DatasourceReference
UnificationXref in BioPAX
PathwayVersion
GeneProduct
Superclass for the following BioPAX terms:<br>
http://www.biopax.org/release/biopax-level3.owl#Dna<br>
http://www.biopax.org/release/biopax-level3.owl#Gene<br>
http://www.biopax.org/release/biopax-level3.owl#Rna<br>
http://www.biopax.org/release/biopax-level3.owl#Protein<br>
Unknown
Value for gpml:Type for a gpml:DataNode. It indicates that the type is either not known to science or at least not known to the pathway author.
PathwayAnnotation
no corresponding element in BioPAX
Label
no corresponding element in BioPAX
GPML:Label
Compartment
no corresponding elements in BioPAX and GPML
Group
Binding
<br><b>Description:</b> A binding interaction between two physical entities resulting in the formation of an explicit complex that is reversible without an external factor (e.g. protein complexes). Binding subclass of Mimbinding
<br>
<b>Properties:</b> <br>
- hasParticipant<br>
<b>GPML:</b> Line with both Points having a "mim-binding" arrowhead.
BasicInteraction
<br><b>A BasicInteraction is a generic biological interaction between two or more pathway elements that is not identified with a MIM type.</b><br>
* GPML: Line (ArrowHead = none, "Line", "Arrow" or "TBar")<br>
* BioPAX: Interaction
CurationTag
ControlledVocabulary
<br><b>Defintion: </b>A controlled vocabulary is a vocabulary consisting of a prescribed list of terms or headings each one having an assigned meaning. ref: http://edutechwiki.unige.ch
Metabolic Process
Cellular Process
<br><b>Definition: </b> Any process that is carried out at cellular level.
Molecular Function
Physiological Process
PathwayCategory
Unspecified
<p>
<b>Definition:</b> indicates some relationship between the data nodes that are connected, but we do not know what that interaction is.
</p>
<ul>
<li>PathVisio (Java): Line Type option "Line"</li>
<li>GPML: ArrowHead="Line", or no ArrowHead property present</li>
</ul>
Activity
<p>
<b>Definition:</b> Any kind of conversion or other activity occurring between two data nodes.
</p>
<ul>
<li>PathVisio (Java): Line Type option "Arrow"</li>
<li>GPML: ArrowHead="Arrow"</li>
</ul>
Inhibitory Activity
<p>
<b>Definition:</b> Any kind of inhibition or other inhibitory activity.
</p>
<ul>
<li>PathVisio (Java): Line Type option "TBar"</li>
<li>GPML: ArrowHead="TBar"</li>
</ul>
CytosolRegion
username
Links to FOAF, Sciencepeople
realName
Links to FOAF
email
revision
Equivalent to http://schema.org/version
hasIdentfier
DC.identifier
hasPathway
Indirect
<p>
<b>Definition:</b> Indicates there are one or more steps missing in the interaction from the first data node to the second data node connected by this interaction.
</p>
<ul>
<li>PathVisio (Java): Line Style option "Dashed"</li>
<li>GPML: LineStyle="Broken"</li>
</ul>
organism
category
Indicates the pathway category to which a selected pathway adheres
pathwayOntology
hasParticipant
interactionTarget
unifiedIdentifier
In WikiPathways curators have the liberty to use any identifier they like. We store a unified Identifier to enable integrative approaches recognizing similar object with different identifier patterns. The mapping between original identifiers and the unified Identifier is provided by the same bridgeDb framework as used in WikiPathways.
bdbEnsembl
bdbUniprot
bdbHmdb
bdbChemspider
bdbEntrezGene
interactsWith
Pathway elements can interact among each other. wp:interactsWith is to express a basic interaction.
Direct
<p>
<b>Definition:</b> Indicates there are no steps missing in the interaction from the first data node to the second data node connected by this interaction.
</p>
<ul>
<li>PathVisio (Java): Line Style option "Solid"</li>
<li>GPML: LineStyle="Solid" or LineStyle not specified</li>
</ul>