{"id":"W2414348877","doi":"10.1097/qad.0000000000000692","title":"Association between gp120 envelope V1V2 and V4V5 variable loop profiles in a defined HIV-1 transmission cluster","year":2015,"lang":"en","type":"article","venue":"AIDS","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Infection and Immunity","funders":"Rijksinstituut voor Volksgezondheid en Milieu; Stichting Sanquin Bloedvoorziening; Universiteit van Amsterdam","keywords":"Seroconversion; V3 loop; Biology; Transmission (telecommunications); Virology; Chronic infection; Viral load; Antibody; Virus; Amino acid; Human immunodeficiency virus (HIV); Cluster (spacecraft); Immunology; Genetics; Epitope; Immune system","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":[0.0004803193,0.000097657,0.0001864111,0.00008734727,0.00005868187,0.00001462789,0.00006722614,0.0002034088,0.0002276951],"category_scores_gemma":[0.0001368497,0.0000766702,0.00002030551,0.0001327381,0.00003088636,0.00008628474,0.00004002275,0.0001742755,0.0007618314],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001218681,"about_ca_system_score_gemma":0.0001090094,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002060187,"about_ca_topic_score_gemma":0.00001177469,"domain_scores_codex":[0.9990819,0.0002291969,0.0001563979,0.0001835968,0.00004830086,0.0003006681],"domain_scores_gemma":[0.9995998,0.0001701033,0.00003704992,0.00009509682,0.00004688464,0.00005110056],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001784369,0.0001359103,0.9431094,0.00002066194,0.0002361795,0.000006488058,0.0008330719,0.000001751002,0.007473687,0.0001599561,0.02265593,0.02518853],"study_design_scores_gemma":[0.02036653,0.001893409,0.3644664,0.0001593802,0.0002203984,0.00002431928,0.0004351305,0.00002522711,0.04247293,0.002311531,0.5670704,0.0005543457],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9918747,0.001658734,0.0005830508,0.001551654,0.00008884899,0.000386394,0.000131573,0.00004181727,0.003683246],"genre_scores_gemma":[0.9809701,0.00007552057,0.001442977,0.00006318099,0.00002604876,0.00004789794,0.0007444049,0.00001087359,0.01661899],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.578643,"threshold_uncertainty_score":0.9792056,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02049823115493172,"score_gpt":0.2565962542429262,"score_spread":0.2360980230879945,"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."}}