Registry Mouse pathology ontology

A structured controlled vocabulary of mutant and transgenic mouse pathology phenotypes

Prefix: mpath
Preferred Prefix: MPATH
Alternative Prefixes: MPATH
Keywords: anatomy biomedical science mouse obo ontology phenotype
Version: 2020-05-19
License: CC-BY-3.0
Links: Homepage Repository OBO OWL
Contact: Paul Schofield 0000-0002-5111-7263 PaulNSchofield
Pattern for Local Unique Identifiers: Local identifiers in Mouse pathology ontology should match this regular expression:
^\d+$
Example Local Unique Identifier: 728 Resolve
Pattern for CURIES: Compact URIs (CURIEs) constructed from Mouse pathology ontology should match this regular expression:
^mpath:\d+$
Example CURIE: mpath:728
Publications: 2010 Pathbase and the MPATH ontology. Community resources for mouse histopathology.

Metaregistry Mouse pathology ontology

The metaregistry provides mappings between the Bioregistry and other registries. There are 8 mappings to external registries for mpath with 2 unique external prefixes.

Registry Name	Registry Metaprefix	External Prefix
AberOWL	`aberowl`	`MPATH`
BioContext	`biocontext`	`MPATH`
BioPortal	`bioportal`	`MPATH`
FAIRSharing	`fairsharing`	`FAIRsharing.3wbgm0`
OBO Foundry	`obofoundry`	`mpath`
OLS	`ols`	`mpath`
OntoBee	`ontobee`	`MPATH`
Prefix Commons	`prefixcommons`	`mpath`

Providers

Providers are various services that resolve CURIEs to URLs. The example CURIE mpath:728 is used to demonstrate the provides available for mpath. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.

Name	Metaprefix	URI
Mouse pathology ontology	`mpath`	http://purl.obolibrary.org/obo/MPATH_728
Bioregistry	`bioregistry`	https://bioregistry.io/mpath:728
OBO Foundry	`obofoundry`	http://purl.obolibrary.org/obo/MPATH_728
Ontology Lookup Service	`ols`	https://www.ebi.ac.uk/ols/ontologies/mpath/terms?iri=http://purl.obolibrary.org/obo/MPATH_728
BioPortal Prefixes	`bioportal`	https://bioportal.bioontology.org/ontologies/MPATH/?p=classes&conceptid=http://purl.obolibrary.org/obo/MPATH_728

Extra Providers

Additional providers curated in the Bioregistry are listed here.

Code	Name	URL
`bio2rdf`	Bio2RDF	http://bio2rdf.org/mpath:728

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

>>> import bioregistry as br
>>> br.normalize_prefix("MPATH")
'mpath'

Get all synonyms:

>>> import bioregistry as br
>>> br.get_synonyms("mpath")
{'MPATH'}

Get the version:

>>> import bioregistry as br
>>> br.get_version("mpath")
'2020-05-19'

Get the license:

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

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("mpath")
'http://www.pathbase.net'

Get the repository:

>>> import bioregistry as br
>>> br.get_repository("mpath")
'https://github.com/PaulNSchofield/mpath'

Get the OBO download link:

>>> import bioregistry as br
>>> br.get_obo_download("mpath")
'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'

Get the OWL download link:

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

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("mpath")
'Paul Schofield'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("mpath")
'pns12@hermes.cam.ac.uk'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("mpath")
'PaulNSchofield'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("mpath")
'0000-0002-5111-7263'