{"id":"W2220657520","doi":"10.1101/035253","title":"High-accuracy HLA type inference from whole-genome sequencing data","year":2015,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"T-cell and B-cell Immunology","field":"Immunology and Microbiology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Discovery Centre","funders":"Institut National de la Santé et de la Recherche Médicale; Royal Society; Wellcome Trust","keywords":"Inference; Human leukocyte antigen; Computer science; Whole genome sequencing; Reference genome; Genome; Computational biology; DNA sequencing; Genetics; Biology; Artificial intelligence; Gene","routes":{"ca_aff":true,"ca_fund":false,"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":[0.004514473,0.001361013,0.001305374,0.002327473,0.0009391508,0.002536627,0.00216564,0.00205451,0.001810191],"category_scores_gemma":[0.01882702,0.0006748388,0.001249691,0.002210263,0.0006566328,0.002426073,0.001511021,0.002264469,0.002231642],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007487654,"about_ca_system_score_gemma":0.00109003,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003451135,"about_ca_topic_score_gemma":0.009054233,"domain_scores_codex":[0.9962248,0.001030769,0.0001921402,0.00164709,0.0007250719,0.0001801815],"domain_scores_gemma":[0.9917922,0.003748782,0.0005056969,0.002814234,0.0009476439,0.0001914542],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001169312,0.0005096482,0.07990659,0.001423506,0.001615433,0.0006764277,0.0007717668,0.1909483,0.1634672,0.01778446,0.04243898,0.4992884],"study_design_scores_gemma":[0.0001476012,0.0001872982,0.01953223,0.0001221454,0.0002898824,0.0009453999,0.0002866135,0.7955022,0.08379223,0.07912009,0.01995668,0.0001175936],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.1987482,0.002373416,0.7614522,0.0005897891,0.0002581443,0.00009129751,0.01011128,0.02313202,0.003243682],"genre_scores_gemma":[0.4776031,0.0007293379,0.4916447,0.0005886059,0.0001137087,0.00009247146,0.02412695,0.002310438,0.002790746],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.004514473,"threshold_uncertainty_score":0.02387512,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04387084886636525,"score_gpt":0.2494137435692969,"score_spread":0.2055428947029317,"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."}}