{"action":"created","issue":{"url":"https://api.github.com/repos/geneontology/go-ontology/issues/12420","repository_url":"https://api.github.com/repos/geneontology/go-ontology","labels_url":"https://api.github.com/repos/geneontology/go-ontology/issues/12420/labels{/name}","comments_url":"https://api.github.com/repos/geneontology/go-ontology/issues/12420/comments","events_url":"https://api.github.com/repos/geneontology/go-ontology/issues/12420/events","html_url":"https://github.com/geneontology/go-ontology/issues/12420","id":150382270,"number":12420,"title":"GO term specificity proposal 5, gene products as  \"activities\"","user":{"login":"ValWood","id":7359272,"avatar_url":"https://avatars.githubusercontent.com/u/7359272?v=3","gravatar_id":"","url":"https://api.github.com/users/ValWood","html_url":"https://github.com/ValWood","followers_url":"https://api.github.com/users/ValWood/followers","following_url":"https://api.github.com/users/ValWood/following{/other_user}","gists_url":"https://api.github.com/users/ValWood/gists{/gist_id}","starred_url":"https://api.github.com/users/ValWood/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ValWood/subscriptions","organizations_url":"https://api.github.com/users/ValWood/orgs","repos_url":"https://api.github.com/users/ValWood/repos","events_url":"https://api.github.com/users/ValWood/events{/privacy}","received_events_url":"https://api.github.com/users/ValWood/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/geneontology/go-ontology/labels/discuss_term_specificity","name":"discuss_term_specificity","color":"eb6420"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":11,"created_at":"2016-04-22T14:21:34Z","updated_at":"2016-04-25T14:15:45Z","closed_at":null,"body":"Processes which refer to gene products as if they are \"activities\"\r\n\r\nsuppression by virus of host IRF9 activity by positive regulation of IRF9 localization to nucleus suppression by virus of host PKR activity by positive regulation of PKR nuclear localization \r\n\r\n\"IRF9 activity\" is not an activity\r\n\"PKR9 activity\" is not an activity\r\n\r\n@pgaudet @thomaspd @dosumis"},"comment":{"url":"https://api.github.com/repos/geneontology/go-ontology/issues/comments/214353917","html_url":"https://github.com/geneontology/go-ontology/issues/12420#issuecomment-214353917","issue_url":"https://api.github.com/repos/geneontology/go-ontology/issues/12420","id":214353917,"user":{"login":"PhilLeMercier","id":18659898,"avatar_url":"https://avatars.githubusercontent.com/u/18659898?v=3","gravatar_id":"","url":"https://api.github.com/users/PhilLeMercier","html_url":"https://github.com/PhilLeMercier","followers_url":"https://api.github.com/users/PhilLeMercier/followers","following_url":"https://api.github.com/users/PhilLeMercier/following{/other_user}","gists_url":"https://api.github.com/users/PhilLeMercier/gists{/gist_id}","starred_url":"https://api.github.com/users/PhilLeMercier/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/PhilLeMercier/subscriptions","organizations_url":"https://api.github.com/users/PhilLeMercier/orgs","repos_url":"https://api.github.com/users/PhilLeMercier/repos","events_url":"https://api.github.com/users/PhilLeMercier/events{/privacy}","received_events_url":"https://api.github.com/users/PhilLeMercier/received_events","type":"User","site_admin":false},"created_at":"2016-04-25T14:15:45Z","updated_at":"2016-04-25T14:15:45Z","body":"We already had a lot of discussion before creating these terms.\n\nPretty much all the vertebrate  virus have at least one protein that hit \nthe Interferon pathway: about 39,000 entries have the \"Inhibition of \nhost interferon signaling pathway by virus\" keyword in UniProt. That is \nwhy we think child terms are justified, like \"suppression by  virus of \nhost IRF9 activity\".\n\nIn my view \"suppression by  virus of host IRF9 activity\" is part of \" \nsuppression by virus of host type I interferon-mediated signaling pathway\"\n\ncheers\n\n\n*Philippe Le Mercier*, PhD\nHead of Swiss-Prot virus program\n*SIB| Swiss Institute of Bioinformatics\n*Geneva, Switzerland\nviralzone.expasy.org\nTel: +41 22 379 58 70\n\nOn 25.04.2016 15:47, Val Wood wrote:\n> On 25/04/2016 14:31, PhilLeMercier wrote:\n> >\n> > *About IRF9:*\n> > IRF9 is a key element for interferon signaling in vertebrate.\n> > http://viralzone.expasy.org/all_by_protein/683.html <url> . This\n> > antiviral pathway is 100% conserved in vertebrates and targeted by\n> > many viruses. We participated creating GO:0039560 \"suppression by\n> > virus of host IRF9 activity\" , and this term is essential from a\n> > virologist point of view. Maybe \"IRF9 activity\" could be replaced by\n> > \"IRF9 signaling\".\n> >\n> If it is the signalling pathway which is being regulated, this sounds\n> more appropriate, although based on\n> http://www.uniprot.org/uniprot/Q00978\n> should it be\n> suppression by virus of host \"type I interferon signaling pathway\n> (GO:0060337)\"\n>\n>\n> —\n> You are receiving this because you commented.\n> Reply to this email directly or view it on GitHub \n> <https://github.com/geneontology/go-ontology/issues/12420#issuecomment-214336013>Web \n> Bug from \n> https://github.com/notifications/beacon/ARy6Orlzv6Wvbgx8piviOdvBptuXiASAks5p7MXygaJpZM4INp8-.gif\n>\n\n"}}