{"id":"W2158238436","doi":"10.1371/journal.pone.0006687","title":"HLA-Associated Immune Escape Pathways in HIV-1 Subtype B Gag, Pol and Nef Proteins","year":2009,"lang":"en","type":"article","venue":"PLoS ONE","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":167,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; AIDS Vancouver; Simon Fraser University","funders":"National Center for Research Resources; National Institute of Allergy and Infectious Diseases; University of California, San Francisco; University of California, San Diego; University of North Carolina at Chapel Hill; Center for AIDS Research, University of Washington; ACT Government; University of California, Davis; Deutsches Krebsforschungszentrum; University of Minnesota; Case Western Reserve University; University of Miami; York University; Northwestern University; University of Rochester; University of Cincinnati; University of Pittsburgh; Los Alamos National Laboratory; Johns Hopkins University; University of Washington; Washington University in St. Louis; Canadian Institutes of Health Research; University of California, Los Angeles; University of Texas Southwestern Medical Center; University of Pennsylvania; Vanderbilt University; National Institutes of Health; Ohio State University; University of Southern California; Bill and Melinda Gates Foundation","keywords":"Human leukocyte antigen; Immune system; Biology; Genetics; Immune escape; Population; HLA-B Antigens; HIV vaccine; Immunology; Virology; Antigen; Antibody; Medicine; Vaccine trial","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"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":[0.0002266331,0.0001693143,0.0002002612,0.0007893825,0.000385606,0.0004151262,0.0001617638,0.0002008314,0.0008892869],"category_scores_gemma":[0.0008154282,0.00008696346,0.0001552547,0.0007990199,0.0004607192,0.0001591433,0.0003287582,0.000234489,0.0001005622],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003818208,"about_ca_system_score_gemma":0.0004763058,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008418325,"about_ca_topic_score_gemma":0.01025642,"domain_scores_codex":[0.9998434,0.00002453307,0.00001367363,0.00005495245,0.00003116489,0.00003225765],"domain_scores_gemma":[0.9994388,0.0001308331,0.0002780662,0.00002340952,0.00005511198,0.00007369468],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.000265853,0.0000354064,0.9520698,0.00003450529,0.00008724126,0.0002475222,0.0003336639,0.0006543164,0.03753747,0.0001994178,0.0000824766,0.008452263],"study_design_scores_gemma":[0.000005995808,0.00005414709,0.9959775,0.000006153181,0.000025967,0.0006046395,0.0001519137,0.001162252,0.001533746,0.0002297652,0.0002441177,0.000003917052],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9995286,0.0001222437,0.0001535232,0.000009322971,2.441606e-7,0.000002785129,0.00007585339,0.000003106775,0.0001043105],"genre_scores_gemma":[0.9994547,0.00006025663,0.0002589902,0.000009250758,9.470824e-7,0.000003641089,0.0001309468,0.000001685154,0.00007958268],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.008418325,"threshold_uncertainty_score":0.01673865,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02187523204499001,"score_gpt":0.1954259889403283,"score_spread":0.1735507568953383,"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."}}