{"action":"created","issue":{"url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/issues/672","repository_url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology","labels_url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/issues/672/labels{/name}","comments_url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/issues/672/comments","events_url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/issues/672/events","html_url":"https://github.com/obophenotype/human-phenotype-ontology/issues/672","id":132553597,"number":672,"title":"blue irides","user":{"login":"pnrobinson","id":4943420,"avatar_url":"https://avatars.githubusercontent.com/u/4943420?v=3","gravatar_id":"","url":"https://api.github.com/users/pnrobinson","html_url":"https://github.com/pnrobinson","followers_url":"https://api.github.com/users/pnrobinson/followers","following_url":"https://api.github.com/users/pnrobinson/following{/other_user}","gists_url":"https://api.github.com/users/pnrobinson/gists{/gist_id}","starred_url":"https://api.github.com/users/pnrobinson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pnrobinson/subscriptions","organizations_url":"https://api.github.com/users/pnrobinson/orgs","repos_url":"https://api.github.com/users/pnrobinson/repos","events_url":"https://api.github.com/users/pnrobinson/events{/privacy}","received_events_url":"https://api.github.com/users/pnrobinson/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/labels/enhancement","name":"enhancement","color":"84b6eb"}],"state":"closed","locked":false,"assignee":{"login":"pnrobinson","id":4943420,"avatar_url":"https://avatars.githubusercontent.com/u/4943420?v=3","gravatar_id":"","url":"https://api.github.com/users/pnrobinson","html_url":"https://github.com/pnrobinson","followers_url":"https://api.github.com/users/pnrobinson/followers","following_url":"https://api.github.com/users/pnrobinson/following{/other_user}","gists_url":"https://api.github.com/users/pnrobinson/gists{/gist_id}","starred_url":"https://api.github.com/users/pnrobinson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pnrobinson/subscriptions","organizations_url":"https://api.github.com/users/pnrobinson/orgs","repos_url":"https://api.github.com/users/pnrobinson/repos","events_url":"https://api.github.com/users/pnrobinson/events{/privacy}","received_events_url":"https://api.github.com/users/pnrobinson/received_events","type":"User","site_admin":false},"milestone":null,"comments":5,"created_at":"2016-02-09T22:23:34Z","updated_at":"2016-03-17T17:52:57Z","closed_at":"2016-03-17T06:16:07Z","body":"Is there a better primary term name that will indicate this is an abnormal phenotype?"},"comment":{"url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/issues/comments/197999190","html_url":"https://github.com/obophenotype/human-phenotype-ontology/issues/672#issuecomment-197999190","issue_url":"https://api.github.com/repos/obophenotype/human-phenotype-ontology/issues/672","id":197999190,"user":{"login":"cmungall","id":50745,"avatar_url":"https://avatars.githubusercontent.com/u/50745?v=3","gravatar_id":"","url":"https://api.github.com/users/cmungall","html_url":"https://github.com/cmungall","followers_url":"https://api.github.com/users/cmungall/followers","following_url":"https://api.github.com/users/cmungall/following{/other_user}","gists_url":"https://api.github.com/users/cmungall/gists{/gist_id}","starred_url":"https://api.github.com/users/cmungall/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/cmungall/subscriptions","organizations_url":"https://api.github.com/users/cmungall/orgs","repos_url":"https://api.github.com/users/cmungall/repos","events_url":"https://api.github.com/users/cmungall/events{/privacy}","received_events_url":"https://api.github.com/users/cmungall/received_events","type":"User","site_admin":false},"created_at":"2016-03-17T17:52:57Z","updated_at":"2016-03-17T17:52:57Z","body":"\nBut there is no option of talking about HP:0000635 in a non-abnormal \ncontext. The hierarchy places it into an abnormal context. Any attempt \nto use it in a normal context will yield either inconsistencies (on the \nOWL reasoning level) or confusion (at the human reasoning level: e.g. \nwhat are the patient curation guidelines for 'blue irides'? Can I use it \nfor normally blue? Or does it have to be 'markedly' blue?)\n\nOn 17 Mar 2016, at 9:51, Peter Robinson wrote:\n\n> I mean that users need to infer we are talking about an \n> „abnormally“ blue iris color from the context, and I cannot think \n> of a way of saying this in the label!\n> -Peter\n>\n> Von: Chris Mungall [mailto:notifications@github.com]\n> Gesendet: Donnerstag, 17. März 2016 17:47\n> An: obophenotype/human-phenotype-ontology \n> <human-phenotype-ontology@noreply.github.com>\n> Cc: Robinson, Peter <peter.robinson@charite.de>\n> Betreff: Re: [human-phenotype-ontology] blue irides (#672)\n>\n>\n> I'm not following\n>\n> \"the phenotype is not abnormal in itself\"\n>\n> clearly \"blue irises\" when used in a general context is not abnormal, \n> but clearly the HPO class is abnormal:\n>\n>  is_a HP:0000118 ! Phenotypic abnormality\n>\n>    is_a HP:0000478 ! Abnormality of the eye\n>\n>     is_a HP:0012372 ! Abnormal eye morphology\n>\n>      is_a HP:0012374 ! Abnormality of the globe\n>\n>       is_a HP:0000553 ! Abnormality of the uvea\n>\n>        is_a HP:0000525 ! Abnormality of the iris\n>\n>         is_a HP:0008034 ! Abnormal iris pigmentation\n>\n>          is_a HP:0000635 ! Blue irides ***\n>\n> nd to encode the \"bundled\" situation when one might use this term into \n> the term name\n>\n> no idea what you mean here\n>\n> —\n> You are receiving this because you modified the open/close state.\n> Reply to this email directly or view it on \n> GitHub<https://github.com/obophenotype/human-phenotype-ontology/issues/672#issuecomment-197969464>\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/obophenotype/human-phenotype-ontology/issues/672#issuecomment-197970918\n"}}