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arpcard / mobio

The Mobilome Ontology describes bacterial mobile genetic elements, their mechanisms, and associated epidemiology.
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Identify MOBIO terms that can be replaced by terms imported from SO & GO #9

Open dfornika opened 4 years ago

dfornika commented 4 years ago

There are outstanding issues on the OBOFoundry repo to add MOBIO:

https://github.com/OBOFoundry/purl.obolibrary.org/pull/603 https://github.com/OBOFoundry/OBOFoundry.github.io/issues/743

The problem that is blocking addition of MOBIO to the OBOFoundry and establishing a purl is that MOBIO has defined several terms that are similar or identical to existing terms in other ontologies (SO & GO).

According to the OBO Foundry's principle of collaboration, terms should be re-used from existing ontologies wherever possible:

http://obofoundry.org/principles/fp-010-collaboration.html

dfornika commented 4 years ago

Imported terms can be added to these files:

https://github.com/arpcard/mobio/blob/master/src/ontology/imports/so_terms.txt https://github.com/arpcard/mobio/blob/master/src/ontology/imports/go_terms.txt

dfornika commented 4 years ago

<-> = 'equivalent' <~> = 'related or approximately equivalent'

MOBIO:0000001 (mobile genetic element) <-> SO:0001037 (mobile_genetic_element) MOBIO:0000002 (plasmid) <-> SO:0000155 (plasmid) MOBIO:0000003 (transposable element) <-> SO:0000101 (transposable_element) MOBIO:0000004 (bacteriophage) <-> SO:0001042 (phage_sequence) MOBIO:0000038 (transposase) <~> GO:0004803 (transposase_activity) MOBIO:0000043 (integron) <-> SO:0000365 (integron) MOBIO:0000090 (resolvase) <~> Submit resolvase_activity to GO? MOBIO:0000203 (genomic_island) <-> SO:0000772 (genomic_island) MOBIO:0000104 (recombinase) <~> GO:0000150 (recombinase_activity)