{"id":"W2086501328","doi":"10.1089/aid.2008.0064","title":"Discrepancies in Assignment of Subtype/Recombinant Forms by Genotyping Programs for HIV Type 1 Drug Resistance Testing May Falsely Predict Superinfection","year":2008,"lang":"en","type":"article","venue":"AIDS Research and Human Retroviruses","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":13,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary; McGill University; Jewish General Hospital","funders":"Canadian Institutes of Health Research; Styrelsen för Internationellt Utvecklingssamarbete","keywords":"Superinfection; Subtyping; Genotyping; Biology; Virology; Recombinant DNA; Drug resistance; Human immunodeficiency virus (HIV); Phylogenetic tree; Computational biology; Genetics; Virus; Genotype; Gene","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":[0.0008867154,0.0001636706,0.0003134441,0.0002653168,0.000662994,0.00003281955,0.0001707629,0.0001074978,0.0000493973],"category_scores_gemma":[0.0003819957,0.0001270424,0.00005052147,0.0003498,0.0007243388,0.0001643218,0.0001148409,0.0003318592,0.0000329021],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001519574,"about_ca_system_score_gemma":0.0001505132,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001264915,"about_ca_topic_score_gemma":0.001136835,"domain_scores_codex":[0.9980961,0.0002100267,0.0003353747,0.0003825323,0.0001581257,0.0008178584],"domain_scores_gemma":[0.9989491,0.0004227574,0.00006953384,0.0002317259,0.0002553697,0.00007158829],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00085387,0.0007480074,0.8938103,0.0002101738,0.0001423825,0.00001512431,0.0006592725,3.718086e-7,0.09150691,0.001864108,0.006700216,0.0034893],"study_design_scores_gemma":[0.01045193,0.01643745,0.6085503,0.000751025,0.00004643212,0.00005909358,0.0019606,0.000003325667,0.1996612,0.003685444,0.1576152,0.0007780738],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9946275,0.00343437,0.00003431601,0.00008366895,0.00004910466,0.000907361,0.00007919891,0.00004029747,0.0007441844],"genre_scores_gemma":[0.9898529,0.0004066727,0.0002161369,0.00000400823,0.00001511236,0.0002505502,0.0002520062,0.00002155044,0.008981068],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.28526,"threshold_uncertainty_score":0.518064,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08253013292022233,"score_gpt":0.3302854467976475,"score_spread":0.2477553138774252,"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."}}