{"id":"W2319514196","doi":"10.1016/s2352-3018(16)00046-1","title":"Near real-time monitoring of HIV transmission hotspots from routine HIV genotyping: an implementation case study","year":2016,"lang":"en","type":"article","venue":"The Lancet HIV","topic":"HIV/AIDS drug development and treatment","field":"Medicine","cited_by":196,"is_retracted":false,"has_abstract":false,"ca_institutions":"Government of British Columbia; University of British Columbia; BC Centre for Disease Control; Ministry of Health; Simon Fraser University; Vancouver Coastal Health; AIDS Vancouver","funders":"National Institute on Drug Abuse; Canadian Institutes of Health Research","keywords":"Genotyping; Human immunodeficiency virus (HIV); Transmission (telecommunications); Medicine; Virology; Computational biology; Genetics; Biology; Genotype; Computer science; Telecommunications","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":[0.0003440351,0.000186109,0.0004128133,0.0000517074,0.0001541399,0.00001743915,0.0001239977,0.00004126555,0.0004397861],"category_scores_gemma":[0.0000095531,0.00009929493,0.0000553542,0.0001228802,0.0000393403,0.0001118389,0.00003220931,0.00007610278,0.000137548],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009010676,"about_ca_system_score_gemma":0.00007134789,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002843721,"about_ca_topic_score_gemma":0.00001890944,"domain_scores_codex":[0.9986855,0.0001313704,0.0003475743,0.000275034,0.0002796181,0.0002809093],"domain_scores_gemma":[0.9991239,0.0001048697,0.0001241439,0.0004720914,0.0000570399,0.0001179546],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0007630648,0.0005623158,0.8812047,0.0000248454,0.0003567626,0.0007790391,0.02418503,0.000004030499,0.05285788,0.00001335257,0.002116693,0.03713232],"study_design_scores_gemma":[0.02603182,0.0006316875,0.8960571,0.0005242221,0.001046319,0.0002452126,0.01512953,0.000420438,0.05497493,0.0001395308,0.004292518,0.0005067113],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9948331,0.00006102548,0.0001996723,0.003747826,0.00005122374,0.0006621273,0.00005930615,0.00009412834,0.0002915851],"genre_scores_gemma":[0.9922454,0.00009588876,0.003838459,0.00001849443,0.0004164925,0.00003339479,0.00007290253,0.00003029458,0.003248676],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03662561,"threshold_uncertainty_score":0.481535,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03949239529908499,"score_gpt":0.3334971358413188,"score_spread":0.2940047405422339,"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."}}