{"id":"W4308179427","doi":"10.1371/journal.ppat.1010613","title":"HIV proviral genetic diversity, compartmentalization and inferred dynamics in lung and blood during long-term suppressive antiretroviral therapy","year":2022,"lang":"en","type":"article","venue":"PLoS Pathogens","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; AIDS Vancouver; Simon Fraser University","funders":"National Institute of Neurological Disorders and Stroke; National Institute of Allergy and Infectious Diseases; National Heart, Lung, and Blood Institute; National Institute of Mental Health; National Institute of Diabetes and Digestive and Kidney Diseases; Canadian Institutes of Health Research; National Institute on Drug Abuse; National Institutes of Health; Canada Research Chairs; National Institute on Aging; National Cancer Institute; Michael Smith Health Research BC","keywords":"Biology; Context (archaeology); Human immunodeficiency virus (HIV); Compartmentalization (fire protection); Lung; Genetic diversity; Genetics; Virology; Immunology; Evolutionary biology; Population; Medicine; Internal medicine","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":[0.00004337541,0.0001247827,0.0001664504,0.0001261076,0.0005177813,0.00001884026,0.00009084745,0.0000475013,0.0001511201],"category_scores_gemma":[0.00000633028,0.000121987,0.00002526657,0.00008677116,0.0001097885,0.00006284181,0.0005945991,0.0001542153,0.00001035856],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001141044,"about_ca_system_score_gemma":0.00002169635,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004112533,"about_ca_topic_score_gemma":0.00006505082,"domain_scores_codex":[0.9990695,0.0002055034,0.0001261165,0.0002606903,0.00005977677,0.0002784288],"domain_scores_gemma":[0.999769,0.00002510437,0.00004747215,0.0001148896,0.00001406462,0.00002947175],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001618408,0.0004688223,0.9348124,0.00003050803,0.0001796323,0.0002374905,0.0008942767,0.000008901756,0.06283285,0.00001791908,0.000009043918,0.0003463563],"study_design_scores_gemma":[0.00442057,0.0004936007,0.9887795,0.000011139,0.00005466853,0.0001009076,0.0002383772,0.0002454201,0.005510891,0.000009135699,0.000004238269,0.0001315616],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.996868,0.001865246,0.00000530321,0.00002668135,0.00003940463,0.0005152679,0.0006109106,0.00002575894,0.00004348482],"genre_scores_gemma":[0.9984249,0.0003572141,0.00001585064,0.00001158502,0.000006007292,0.00006024204,0.0009424798,0.00001095736,0.0001706969],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05732196,"threshold_uncertainty_score":0.4974487,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01317961236215255,"score_gpt":0.2317282690700341,"score_spread":0.2185486567078815,"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."}}