{"id":"W4214521759","doi":"10.1093/bioinformatics/btac134","title":"HAMdetector: a Bayesian regression model that integrates information to detect HLA-associated mutations","year":2022,"lang":"en","type":"article","venue":"Bioinformatics","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"AIDS Vancouver; Simon Fraser University","funders":"Canadian Institutes of Health Research; Deutsche Forschungsgemeinschaft; Michael Smith Health Research BC","keywords":"Human leukocyte antigen; Major histocompatibility complex; CTL*; Computational biology; Biology; Epitope; Bayesian probability; Bayes' theorem; Population; Bayesian inference; Computer science; Genetics; CD8; Artificial intelligence; Immune system; 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":[0.003722022,0.001340602,0.002111556,0.001408784,0.0004652486,0.001192415,0.003098901,0.002218715,0.00403526],"category_scores_gemma":[0.006975871,0.001026897,0.001374426,0.0009319657,0.0009014266,0.001050694,0.001239833,0.00239478,0.001255447],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001244209,"about_ca_system_score_gemma":0.001742498,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01772749,"about_ca_topic_score_gemma":0.01513975,"domain_scores_codex":[0.9989222,0.0005309208,0.00003879946,0.000247048,0.0001573784,0.0001036035],"domain_scores_gemma":[0.9967596,0.002383761,0.0002485364,0.00008510852,0.0004113059,0.0001115578],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0002617134,0.00007938143,0.003259006,0.00008093104,0.0001535116,0.00009342952,0.00003812956,0.9307559,0.0010469,0.01005573,0.002618376,0.05155699],"study_design_scores_gemma":[0.00001291182,0.00001258385,0.0001124918,0.000006628734,0.00001108261,0.00001047065,0.000001618154,0.9973946,0.0001108941,0.002039647,0.000279996,0.000007217498],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02100365,0.0007664254,0.9738355,0.0007383252,0.0000696136,0.00009882506,0.0007607225,0.001098948,0.001627971],"genre_scores_gemma":[0.596693,0.001202546,0.3844323,0.001254721,0.0003983322,0.0007097038,0.00343386,0.0003703645,0.01150513],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01772749,"threshold_uncertainty_score":0.03524864,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01617440677839255,"score_gpt":0.2369433670564221,"score_spread":0.2207689602780296,"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."}}