Registry WikiPathways GPML Vocabulary

Suggest

The WikiPatwhays Graphical Pathway Markup Language (GPML) vocabulary.

Prefix: gpml
Alternative Prefixes: wikipathways.gpml
Keywords: ontology
Version: 2013a
License: CC0-1.0
Links: Homepage Repository OWL Request Discussion @wikipathways@fosstodon.org Part of wikipathways
Publications: 2025 WikiPathways 2024: next generation pathway database

Identifier Standards

Pattern for Local Unique Identifiers: Local unique identifiers in WikiPathways GPML Vocabulary should match this regular expression:
^[A-Za-z]+$
Example Local Unique Identifier: DataNode Resolve
Pattern for CURIES: Compact URIs (CURIEs) constructed from WikiPathways GPML Vocabulary should match this regular expression:
^gpml:[A-Za-z]+$
Example CURIE: gpml:DataNode

Contacts

Contact: Egon Willighagen 0000-0001-7542-0286 egonw
Contributors: creator Javier Millán Acosta 0000-0001-5608-781X jmillanacosta; contributor Benjamin M. Gyori 0000-0001-9439-5346 bgyori
Reviewer: Charles Tapley Hoyt 0000-0003-4423-4370 cthoyt

Ontology

A summary of the relations in the Semantic Farm schema can be found here.

In Collection (1): WikiPathways Resources

Mappings to External Registries

Mappings from records in Semantic Farm to external registries comprises the metaregistry. This resource has 2 mappings to external registries with 1 unique external prefixes.

Registry Name	Registry Metaprefix	External Prefix	Curate
AberOWL	`aberowl`	`GPML`
BioPortal	`bioportal`	`GPML`

Providers

Suggest

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier DataNode is used to demonstrate the providers available for WikiPathways GPML Vocabulary. Some providers may use a different example, which is displayed in the table below. A guide for curating additional providers can be found here.

Provider Name	Provider Code	URI
WikiPathways GPML Vocabulary	`gpml`	http://vocabularies.wikipathways.org/gpml#DataNode
Bioregistry	`bioregistry`	https://bioregistry.io/gpml:DataNode

Normalize prefixes. This can be any capitalization or punctuation variant of the synonyms listed below.

>>> import bioregistry as br
>>> br.normalize_prefix("wikipathways.gpml")
'gpml'

Get all synonyms:

>>> import bioregistry as br
>>> br.get_synonyms("gpml")
{'wikipathways.gpml'}

Get the version:

>>> import bioregistry as br
>>> br.get_version("gpml")
'2013a'

This name annotation was originally annotated in Bioregistry and is redistributed under the CC0-1.0 license.

Get the name:

>>> import bioregistry as br
>>> br.get_name("gpml")
'WikiPathways GPML Vocabulary'

Get the license:

>>> import bioregistry as br
>>> br.get_license("gpml")
'CC0-1.0'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("gpml")
'https://vocabularies.wikipathways.org/gpml'

Get the repository:

>>> import bioregistry as br
>>> br.get_repository("gpml")
'https://github.com/wikipathways/WpVocabularies'

Get the OWL download link:

>>> import bioregistry as br
>>> br.get_owl_download("gpml")
'https://github.com/wikipathways/WpVocabularies/raw/refs/heads/master/docs/gpml.owl'

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("gpml")
'Egon Willighagen'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("gpml")
'egon.willighagen@gmail.com'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("gpml")
'egonw'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("gpml")
'0000-0001-7542-0286'