{"id":"W2088668371","doi":"10.3791/2531","title":"Genotypic Inference of HIV-1 Tropism Using Population-based Sequencing of V3","year":2010,"lang":"en","type":"article","venue":"Journal of Visualized Experiments","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":20,"is_retracted":false,"has_abstract":true,"ca_institutions":"AIDS Vancouver","funders":"Canadian Institutes of Health Research; ViiV Healthcare; GlaxoSmithKline; Pfizer","keywords":"Genotype; Biology; Inference; Human immunodeficiency virus (HIV); Population; Tropism; Computational biology; Virology; Genetics; Medicine; Computer science; Virus; Gene; Artificial intelligence","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002202381,0.0001130025,0.0003762178,0.0002211352,0.0000629257,0.000006010978,0.0001679649,0.0001213459,0.0004890451],"category_scores_gemma":[0.0001487485,0.00008851958,0.0001363569,0.00009941089,0.00009668063,0.00009424822,0.00002861349,0.0002339156,0.0000225498],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008374947,"about_ca_system_score_gemma":0.0002998032,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002565694,"about_ca_topic_score_gemma":0.000005599305,"domain_scores_codex":[0.998845,0.0001521843,0.0005975605,0.00009309634,0.000113157,0.0001989414],"domain_scores_gemma":[0.9988712,0.0001121888,0.0005896867,0.0001589745,0.0002247705,0.00004318241],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0003338409,0.0002572657,0.04567249,0.0000172994,0.0001921544,0.000007743029,0.0003945094,0.00004537614,0.952542,0.0001204225,0.00002588583,0.0003909972],"study_design_scores_gemma":[0.003559182,0.0003896352,0.01678083,0.00008644418,0.00004081857,0.00002812163,0.0001485256,0.00005804092,0.9786255,0.00005564935,0.0001524363,0.0000748543],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9976158,0.0007101672,0.001166719,0.00001373624,0.0003108332,0.0001052213,0.0000222875,0.000006200879,0.00004905299],"genre_scores_gemma":[0.9959603,0.00001190015,0.003915526,0.00001246893,0.00002208519,0.000001894219,0.00002305629,0.00001262694,0.00004015327],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02889165,"threshold_uncertainty_score":0.5354701,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04932506480073975,"score_gpt":0.4313952475625059,"score_spread":0.3820701827617661,"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."}}