{"id":"W3206634447","doi":"10.7717/peerj.12368","title":"HLA alleles measured from COVID-19 patient transcriptomes reveal associations with disease prognosis in a New York cohort","year":2021,"lang":"en","type":"article","venue":"PeerJ","topic":"COVID-19 Clinical Research Studies","field":"Medicine","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"Genome British Columbia","funders":"National Human Genome Research Institute; National Institutes of Health; Genome British Columbia; Genome Canada","keywords":"Human leukocyte antigen; Cohort; Allele; Bonferroni correction; Medicine; Disease; Immunology; Internal medicine; Genetics; Biology; Gene; Antigen","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000273807,0.0002074493,0.0002821734,0.0004803302,0.0004424534,0.0005691498,0.0002254417,0.000242441,0.002654689],"category_scores_gemma":[0.000984406,0.0001637995,0.00020445,0.0006762072,0.0002234215,0.000246432,0.0006216197,0.0004130469,0.0003885316],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002602393,"about_ca_system_score_gemma":0.0002466302,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01533074,"about_ca_topic_score_gemma":0.01985138,"domain_scores_codex":[0.9998216,0.0000243887,0.0000141417,0.00008423653,0.00002054258,0.00003512569],"domain_scores_gemma":[0.99946,0.00009614764,0.0001697459,0.00007848509,0.00006547295,0.0001300624],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0002761638,0.00001513309,0.9945105,0.000009870528,0.00003960943,0.0001089302,0.0001686936,0.00005241921,0.002806724,0.00002021881,0.0004938047,0.001497909],"study_design_scores_gemma":[0.000006113362,0.00002652021,0.9990429,0.000004979427,0.00001299842,0.0001184759,0.0001844969,0.0001639117,0.000103449,0.00001430684,0.0003188563,0.000002961839],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983376,0.00006707821,0.00007465923,0.00002810804,0.000004696726,0.000003837006,0.001299928,0.000002194423,0.0001819194],"genre_scores_gemma":[0.9949061,0.0001167536,0.0001337749,0.00002425159,0.00001149675,0.00001620216,0.004391659,0.000006262916,0.0003936729],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01533074,"threshold_uncertainty_score":0.03048301,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09007113166525926,"score_gpt":0.3876025581898289,"score_spread":0.2975314265245697,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}