{"id":"W2101035812","doi":"10.1089/aid.2007.0200","title":"Full-Length HIV Type 1 Proviral Sequencing of 10 Highly Exposed Women from Nairobi, Kenya Reveals a High Proportion of Intersubtype Recombinants","year":2008,"lang":"en","type":"article","venue":"AIDS Research and Human Retroviruses","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada; University of Manitoba","funders":"Canadian Institutes of Health Research; Canada Research Chairs","keywords":"Biology; Clade; Virology; Genotyping; Recombination; Phylogenetic tree; Recombinant DNA; Genetics; Lentivirus; Sequence analysis; Virus; Gene; Genotype; Viral disease","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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0008136146,0.0002125938,0.0005552793,0.0004775474,0.0004034628,0.0000190047,0.0003263475,0.0002121497,0.001305957],"category_scores_gemma":[0.0004274662,0.0001710408,0.00006908826,0.0003585757,0.001245635,0.000195361,0.0002366938,0.0004894248,0.0003351407],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002643934,"about_ca_system_score_gemma":0.0003273335,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001300886,"about_ca_topic_score_gemma":0.0001044755,"domain_scores_codex":[0.997327,0.0005455595,0.0005553119,0.0004706439,0.0002753094,0.0008261367],"domain_scores_gemma":[0.9983778,0.000264486,0.0001982409,0.0004706474,0.0005682952,0.0001205524],"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":[0.003598598,0.0005963177,0.123831,0.0001235896,0.0004591726,0.00007316652,0.002054472,2.01783e-7,0.862599,0.0008094355,0.00411222,0.001742818],"study_design_scores_gemma":[0.008967677,0.05159692,0.2478676,0.0004381337,0.00004672982,0.00006082613,0.00234616,6.264808e-7,0.6804271,0.004006247,0.003697156,0.0005449071],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9974399,0.001066493,0.000003118825,0.00002743678,0.00008130243,0.0005366722,0.0002179201,0.00003811474,0.0005890515],"genre_scores_gemma":[0.9905335,0.0004859854,0.0001473323,0.000008071583,0.00003332252,0.00006206084,0.0003174902,0.00002632408,0.008385912],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.182172,"threshold_uncertainty_score":0.999607,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07738735262159918,"score_gpt":0.3164510593982117,"score_spread":0.2390637067766125,"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."}}