{"id":"W4407779808","doi":"10.3390/pathogens14030207","title":"Computational and Population-Based HLA Permissiveness to HIV Drug Resistance-Associated Mutations","year":2025,"lang":"en","type":"article","venue":"Pathogens","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University; AIDS Vancouver","funders":"","keywords":"Human leukocyte antigen; CTL*; Permissiveness; Allele; Immunology; Population; Biology; Drug resistance; Genetics; Human immunodeficiency virus (HIV); Cytotoxic T cell; Virology; CD8; Antigen; Virus; Medicine; Gene; Viral replication","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0000995851,0.00008558681,0.0001244469,0.0001324513,0.0003144632,0.00001637174,0.00005664008,0.00005468464,0.0001434345],"category_scores_gemma":[0.0001613757,0.00008089432,0.0000354933,0.0002002004,0.00004193898,0.00001992632,0.00002316642,0.00007075818,0.0002017882],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008071777,"about_ca_system_score_gemma":0.0001412473,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004961538,"about_ca_topic_score_gemma":0.0003230817,"domain_scores_codex":[0.999299,0.0001466038,0.0001319705,0.0001970476,0.00003480844,0.0001905465],"domain_scores_gemma":[0.9994634,0.0002792519,0.00002795772,0.00009577335,0.0001002559,0.00003335688],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0005584493,0.001134173,0.8881791,0.0001228419,0.0009493695,0.0001037559,0.00205378,0.007017403,0.03520554,0.01216759,0.04329739,0.009210565],"study_design_scores_gemma":[0.002135223,0.00002391512,0.9786449,0.000080366,0.00006076724,0.000002072371,0.0001484832,0.000135653,0.001396018,0.001652499,0.01555766,0.0001624476],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9898231,0.0007753031,0.00199781,0.004287071,0.0001195902,0.0003711957,0.001047102,0.00006853959,0.001510293],"genre_scores_gemma":[0.9841285,0.000002746743,0.0005813935,0.0001874373,0.000003456067,0.00006129751,0.002522671,0.000005647224,0.01250684],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09046575,"threshold_uncertainty_score":0.3298775,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008739369973264324,"score_gpt":0.2712289262575822,"score_spread":0.2624895562843179,"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."}}