{"id":"W3017020108","doi":"10.1093/bioinformatics/btaa756","title":"HLA predictions from the bronchoalveolar lavage fluid and blood samples of eight COVID-19 patients at the pandemic onset","year":2020,"lang":"en","type":"article","venue":"Bioinformatics","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":33,"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":"Bronchoalveolar lavage; Human leukocyte antigen; Immunology; Allele; Pandemic; Biology; Population; Coronavirus disease 2019 (COVID-19); Allele frequency; Transcriptome; Disease; Gene; Medicine; Antigen; Genetics; Internal medicine; Infectious disease (medical specialty); Gene expression; Lung","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":[0.0008481745,0.0004710295,0.0004434038,0.001151255,0.0004904201,0.0008741419,0.000353069,0.0005424336,0.005102562],"category_scores_gemma":[0.002793737,0.0001735107,0.0008548961,0.001036467,0.0001658703,0.0004145482,0.0005351438,0.0006675266,0.002085738],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002615778,"about_ca_system_score_gemma":0.0006893378,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002948926,"about_ca_topic_score_gemma":0.003679189,"domain_scores_codex":[0.9994159,0.0001338647,0.0000703704,0.0002129823,0.00006009338,0.0001067918],"domain_scores_gemma":[0.9992637,0.0003171996,0.0001070968,0.00008550104,0.0001128954,0.0001135319],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001494274,0.0002773381,0.8815936,0.0002072653,0.0004617048,0.001418679,0.0003101525,0.006248463,0.03160106,0.0005326469,0.01563535,0.06021939],"study_design_scores_gemma":[0.0003610393,0.0007034244,0.7730446,0.0001788864,0.0008896649,0.005266771,0.002405722,0.149007,0.0177679,0.005849476,0.04440523,0.0001203502],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9442225,0.001182544,0.01618209,0.001204106,0.0002263322,0.00008458144,0.03406148,0.0005054402,0.002331006],"genre_scores_gemma":[0.9353332,0.0002865656,0.008702513,0.0003426373,0.0000703867,0.00006810763,0.0542286,0.00006610528,0.0009019147],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.005102562,"threshold_uncertainty_score":0.01706982,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05237294114448221,"score_gpt":0.3052391455710094,"score_spread":0.2528662044265272,"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."}}