MIRA Epi Metaregistry - The COVID-19 Infectious Disease Ontology

Registry The COVID-19 Infectious Disease Ontology

The COVID-19 Infectious Disease Ontology (IDO-COVID-19) is an extension of the Infectious Disease Ontology (IDO) and the Virus Infectious Disease Ontology (VIDO). IDO-COVID-19 follows OBO Foundry guidelines, employs the Basic Formal Ontology as its starting point, and covers epidemiology, classification, pathogenesis, and treatment of terms used to represent infection by the SARS-CoV-2 virus strain, and the associated COVID-19 disease.

Prefix: idocovid19
Preferred Prefix: idocovid19
Version: 2020-07-21
Links: Homepage Repository OWL
Contact: John Beverly 0000-0002-1118-1738 johnbeve
Pattern for Local Unique Identifiers: Local identifiers in The COVID-19 Infectious Disease Ontology should match this regular expression:
^\d{7}$
Example Local Unique Identifier: 0001191 Resolve
Pattern for CURIES: Compact URIs (CURIEs) constructed from The COVID-19 Infectious Disease Ontology should match this regular expression:
^idocovid19:\d{7}$
Example CURIE: idocovid19:0001191

Metaregistry The COVID-19 Infectious Disease Ontology

The metaregistry provides mappings between the Bioregistry and other registries. There are 3 mappings to external registries for idocovid19 with 2 unique external prefixes.

Registry Name	Registry Metaprefix	External Prefix
AberOWL	`aberowl`	`IDO-COVID-19`
BioPortal Prefixes	`bioportal`	`IDO-COVID-19`
Ontology Lookup Service	`ols`	`idocovid19`

Providers

Providers are various services that resolve CURIEs to URLs. The example CURIE idocovid19:0001191 is used to demonstrate the provides available for idocovid19. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.

Name	Metaprefix	URI
The COVID-19 Infectious Disease Ontology	`idocovid19`	http://purl.obolibrary.org/obo/COVIDO_0001191
Bioregistry	`bioregistry`	https://bioregistry.io/idocovid19:0001191
None	`obo1`	http://purl.obolibrary.org/obo/IDO-COVID-19_0001191

Extra Providers

Additional providers curated in the Bioregistry are listed here.

Code	Name	URL
`obo1`	Incorrect OBO PURL variation 1	http://purl.obolibrary.org/obo/IDO-COVID-19_0001191

Get the version:

>>> import bioregistry as br
>>> br.get_version("idocovid19")
'2020-07-21'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("idocovid19")
'https://github.com/infectious-disease-ontology-extensions/ido-covid-19'

Get the repository:

>>> import bioregistry as br
>>> br.get_repository("idocovid19")
'https://github.com/infectious-disease-ontology-extensions/ido-covid-19'

Get the OWL download link:

>>> import bioregistry as br
>>> br.get_owl_download("idocovid19")
'https://raw.githubusercontent.com/infectious-disease-ontology-extensions/ido-covid-19/master/ontology/ido%20covid-19'

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("idocovid19")
'John Beverly'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("idocovid19")
'johnbeverley2021@u.northwestern.edu'

Get the contact's GitHub handle:

>>> import bioregistry as br
>>> br.get_contact_github("idocovid19")
'johnbeve'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("idocovid19")
'0000-0002-1118-1738'