{"action":"closed","issue":{"url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/issues/28","labels_url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/issues/28/labels{/name}","comments_url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/issues/28/comments","events_url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/issues/28/events","html_url":"https://github.com/mpresteg/ImmunogeneticDataTools/issues/28","id":69335547,"number":28,"title":"Failure to detect homozygous DRB345 linkage using NMDP frequencies","user":{"login":"mpresteg","id":8846896,"avatar_url":"https://avatars.githubusercontent.com/u/8846896?v=3","gravatar_id":"","url":"https://api.github.com/users/mpresteg","html_url":"https://github.com/mpresteg","followers_url":"https://api.github.com/users/mpresteg/followers","following_url":"https://api.github.com/users/mpresteg/following{/other_user}","gists_url":"https://api.github.com/users/mpresteg/gists{/gist_id}","starred_url":"https://api.github.com/users/mpresteg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mpresteg/subscriptions","organizations_url":"https://api.github.com/users/mpresteg/orgs","repos_url":"https://api.github.com/users/mpresteg/repos","events_url":"https://api.github.com/users/mpresteg/events{/privacy}","received_events_url":"https://api.github.com/users/mpresteg/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/labels/bug","name":"bug","color":"fc2929"}],"state":"closed","locked":false,"assignee":{"login":"mpresteg","id":8846896,"avatar_url":"https://avatars.githubusercontent.com/u/8846896?v=3","gravatar_id":"","url":"https://api.github.com/users/mpresteg","html_url":"https://github.com/mpresteg","followers_url":"https://api.github.com/users/mpresteg/followers","following_url":"https://api.github.com/users/mpresteg/following{/other_user}","gists_url":"https://api.github.com/users/mpresteg/gists{/gist_id}","starred_url":"https://api.github.com/users/mpresteg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mpresteg/subscriptions","organizations_url":"https://api.github.com/users/mpresteg/orgs","repos_url":"https://api.github.com/users/mpresteg/repos","events_url":"https://api.github.com/users/mpresteg/events{/privacy}","received_events_url":"https://api.github.com/users/mpresteg/received_events","type":"User","site_admin":false},"milestone":{"url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/milestones/1","html_url":"https://github.com/mpresteg/ImmunogeneticDataTools/milestones/v0.2","labels_url":"https://api.github.com/repos/mpresteg/ImmunogeneticDataTools/milestones/1/labels","id":1043239,"number":1,"title":"v0.2","description":"Implement more up to date frequencies, report frequencies by race, include support for 'g' codes and check for common well documented alleles.","creator":{"login":"mpresteg","id":8846896,"avatar_url":"https://avatars.githubusercontent.com/u/8846896?v=3","gravatar_id":"","url":"https://api.github.com/users/mpresteg","html_url":"https://github.com/mpresteg","followers_url":"https://api.github.com/users/mpresteg/followers","following_url":"https://api.github.com/users/mpresteg/following{/other_user}","gists_url":"https://api.github.com/users/mpresteg/gists{/gist_id}","starred_url":"https://api.github.com/users/mpresteg/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mpresteg/subscriptions","organizations_url":"https://api.github.com/users/mpresteg/orgs","repos_url":"https://api.github.com/users/mpresteg/repos","events_url":"https://api.github.com/users/mpresteg/events{/privacy}","received_events_url":"https://api.github.com/users/mpresteg/received_events","type":"User","site_admin":false},"open_issues":2,"closed_issues":11,"state":"open","created_at":"2015-03-29T00:32:47Z","updated_at":"2015-04-19T01:53:13Z","due_on":"2015-05-15T05:00:00Z","closed_at":null},"comments":1,"created_at":"2015-04-18T18:31:26Z","updated_at":"2015-04-19T01:53:13Z","closed_at":"2015-04-19T01:53:13Z","body":"Found a problem when we do not have DRB3/4/5 allele.\r\n\r\nIt make sense that we could not find BC linkage, because we had HLA-B typing dropout.\r\nThe problem is \"WARNING: 2 DRDQ Linkage(s) not found\".\r\n\r\nIn this example, we do not usually expect any DRB345 allele when we  find HLA-DRB\\*01:02:01. In wiki table, it says \"--\", but in NMDP table it shows as follows:\r\nDRBX\\*NNNN\tDRB1\\*01:02\tDQB1\\*05:01\r\n\r\nIn this case we have no DRB345 report, but have HLA-DRB1\\*01:02:01 - HLA-DQB1\\*05:01:01:01 in the GL string.\r\nSo, this linkage is correct, but software does not know how to report DRBX\\*NNNN...\r\n\r\nExample:\r\nHLA-A\\*02:01:01:01+HLA-A\\*33:01:01^HLA-C\\*08:02:01/HLA-C\\*08:34+HLA-C\\*08:02:01/HLA-C\\*08:34^HLA-DPA1\\*01:03:01:01/HLA-DPA1\\*01:03:01:02/HLA-DPA1\\*01:03:01:03/HLA-DPA1\\*01:03:01:04/HLA-DPA1\\*01:03:01:05+HLA-DPA1\\*01:03:01:01/HLA-DPA1\\*01:03:01:02/HLA-DPA1\\*01:03:01:03/HLA-DPA1\\*01:03:01:04/HLA-DPA1\\*01:03:01:05^HLA-DPB1\\*04:01:01:01/HLA-DPB1\\*04:01:01:02+HLA-DPB1\\*04:02:01:01/HLA-DPB1\\*04:02:01:02|HLA-DPB1\\*105:01+HLA-DPB1\\*126:01^HLA-DQA1\\*01:01:01/HLA-DQA1\\*01:01:02/HLA-DQA1\\*01:04:01:01/HLA-DQA1\\*01:04:01:02/HLA-DQA1\\*01:05+HLA-DQA1\\*01:01:01/HLA-DQA1\\*01:01:02/HLA-DQA1\\*01:04:01:01/HLA-DQA1\\*01:04:01:02/HLA-DQA1\\*01:05^HLA-DQB1\\*05:01:01:01/HLA-DQB1\\*05:01:01:02+HLA-DQB1\\*05:01:01:01/HLA-DQB1\\*05:01:01:02^HLA-DRB1\\*01:02:01+HLA-DRB1\\*01:02:01"}}