Bioregistry - Symptom Ontology

Registry Symptom Ontology

The Symptom Ontology has been developed as a standardized ontology for symptoms of human diseases.

Prefix

symp

Preferred Prefix

SYMP

Alternative Prefixes

SYMP

Version

2022-05-26

Links

Homepage Repository OBO OWL

Contact

Lynn Schriml 0000-0001-8910-9851 lschriml

Pattern for Local Unique Identifiers

Local identifiers in Symptom Ontology should match this regular expression:
^\d{7}$

Example Local Unique Identifier

0019171 Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Symptom Ontology should match this regular expression:
^SYMP:\d{7}$

Example CURIE

SYMP:0019171

References

Publication GeMInA, Genomic Metadata for Infectious Agents, a geospatial surveillance pathogen database
Publication The Human Disease Ontology 2022 update

Ontology

Appears In: SCDO

Metaregistry Symptom Ontology

The metaregistry provides mappings between the Bioregistry and other registries. There are 8 mappings to external registries for symp.

Registry Name	Metaprefix	External Prefix
AberOWL	`aberowl`	`SYMP`
BioContext	`biocontext`	`SYMP`
BioPortal Prefixes	`bioportal`	`SYMP`
FAIRSharing	`fairsharing`	`FAIRsharing.ay74mj`
OBO Foundry	`obofoundry`	`SYMP`
Ontology Lookup Service	`ols`	`symp`
OntoBee	`ontobee`	`SYMP`
Wikidata Property	`wikidata`	`P8656`

Providers

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

Name	Metaprefix	URI
Symptom Ontology	`symp`	http://purl.obolibrary.org/obo/SYMP_0019171
Bioregistry	`bioregistry`	https://bioregistry.io/symp:0019171
OBO Foundry	`obofoundry`	http://purl.obolibrary.org/obo/SYMP_0019171
Ontology Lookup Service	`ols`	https://www.ebi.ac.uk/ols/ontologies/symp/terms?iri=http://purl.obolibrary.org/obo/SYMP_0019171
BioPortal Prefixes	`bioportal`	https://bioportal.bioontology.org/ontologies/SYMP/?p=classes&conceptid=http://purl.obolibrary.org/obo/SYMP_0019171

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

>>> import bioregistry as br
>>> br.normalize_prefix("SYMP")
'symp'

Get all synonyms:

>>> import bioregistry as br
>>> br.get_synonyms("symp")
{'SYMP'}

Get the version:

>>> import bioregistry as br
>>> br.get_version("symp")
'2022-05-26'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("symp")
'http://symptomontologywiki.igs.umaryland.edu/mediawiki/index.php/Main_Page'

Get the repository:

>>> import bioregistry as br
>>> br.get_repository("symp")
'https://github.com/DiseaseOntology/SymptomOntology'

Get the OBO download link:

>>> import bioregistry as br
>>> br.get_obo_download("symp")
'http://purl.obolibrary.org/obo/symp.obo'

Get the OWL download link:

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

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("symp")
'Lynn Schriml'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("symp")
'lynn.schriml@gmail.com'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("symp")
'lschriml''

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("symp")
'0000-0001-8910-9851'