Registry Unipathway Deprecated

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A manually curated resource for the representation and annotation of metabolic pathways

Prefix: upa
Preferred Prefix: UPA
Alternative Prefixes: unipathway.pathway unipathway UPa
Keywords: obo ontology pathway
Version: 2024-03-06
License: CC-BY-3.0
Links: Homepage Repository OBO OWL
Contact: Anne Morgat 0000-0002-1216-2969 amorgat
Pattern for Local Unique Identifiers: Local identifiers in Unipathway should match this regular expression:
^(UCR|UCY|UER|ULS|UPA|UPC|UPX)\d{5}$
Example Local Unique Identifier: UCR00513 Resolve
Pattern for CURIES: Compact URIs (CURIEs) constructed from Unipathway should match this regular expression:
^UPA:(UCR|UCY|UER|ULS|UPA|UPC|UPX)\d{5}$
Example CURIE: UPA:UCR00513
Publications: 2011 UniPathway: a resource for the exploration and annotation of metabolic pathways

Ontology

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

Depends On (1) (bioregistry.schema:0000017 ): RO

Metaregistry Unipathway

The metaregistry provides mappings between the Bioregistry and other registries. There are 10 mappings to external registries for this resource with 4 unique external prefixes.

Registry Name	Registry Metaprefix	External Prefix
AberOWL	`aberowl`	`UPA`
BioContext	`biocontext`	`UNIPATHWAY`
BioPortal	`bioportal`	`UPA`
EDAM	`edam`	`2645`
GO	`go`	`UniPathway`
OBO Foundry	`obofoundry`	`upa`
OLS	`ols`	`upa`
OntoBee	`ontobee`	`UPA`
Pathguide	`pathguide`	`414`
Prefix Commons	`prefixcommons`	`unipathway`

RDF Information

When using this resource in RDF, the following URI format should be used:

http://purl.obolibrary.org/obo/UPA_$1

Providers

Providers are various services that resolve CURIEs to URLs. The example CURIE UPA:UCR00513 is used to demonstrate the provides available for this resource. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.

Name	Metaprefix	URI
Unipathway	`upa`	http://www.grenoble.prabi.fr/obiwarehouse/unipathway/upa?upid=UCR00513
Unipathway (RDF)	`rdf`	http://purl.obolibrary.org/obo/UPA_UCR00513
Bioregistry	`bioregistry`	https://bioregistry.io/upa:UCR00513
OBO Foundry	`obofoundry`	http://purl.obolibrary.org/obo/UPA_UCR00513
Ontology Lookup Service	`ols`	https://www.ebi.ac.uk/ols4/ontologies/upa/terms?iri=http://purl.obolibrary.org/obo/UPA_UCR00513
BioPortal Prefixes	`bioportal`	https://bioportal.bioontology.org/ontologies/UPA/?p=classes&conceptid=http://purl.obolibrary.org/obo/UPA_UCR00513

Extra Providers

Additional providers curated in the Bioregistry are listed here.

Code	Name	URL
`bio2rdf`	Bio2RDF	http://bio2rdf.org/unipathway:UCR00513

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

>>> import bioregistry as br
>>> br.normalize_prefix("unipathway.pathway")
'upa'

Get all synonyms:

>>> import bioregistry as br
>>> br.get_synonyms("upa")
{'unipathway.pathway', 'unipathway', 'UPa'}

Get the version:

>>> import bioregistry as br
>>> br.get_version("upa")
'2024-03-06'

Get the license:

>>> import bioregistry as br
>>> br.get_license("upa")
'CC-BY-3.0'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("upa")
'https://github.com/geneontology/unipathway'

Get the repository:

>>> import bioregistry as br
>>> br.get_repository("upa")
'https://github.com/geneontology/unipathway'

Get the OBO download link:

>>> import bioregistry as br
>>> br.get_obo_download("upa")
'https://raw.githubusercontent.com/geneontology/unipathway/master/upa.obo'

Get the OWL download link:

>>> import bioregistry as br
>>> br.get_owl_download("upa")
'http://purl.obolibrary.org/obo/upa.owl'

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("upa")
'Anne Morgat'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("upa")
'Anne.Morgat@sib.swiss'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("upa")
'amorgat'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("upa")
'0000-0002-1216-2969'