{"id":"W4315481287","doi":"10.1038/s41467-022-35379-y","title":"Antiretroviral APOBEC3 cytidine deaminases alter HIV-1 provirus integration site profiles","year":2023,"lang":"en","type":"article","venue":"Nature Communications","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":16,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Infection and Immunity; University of Ottawa; Western University","funders":"National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; Government of Canada","keywords":"Provirus; Cytidine deaminase; Human immunodeficiency virus (HIV); Cytidine; Antiretroviral treatment; Antiretroviral therapy; Virology; Biology; Computational biology; Genetics; Viral load; Biochemistry; Enzyme; Genome; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009273948,0.0001135612,0.0001454426,0.0001113639,0.0000999876,0.0003037743,0.0001202439,0.0002647354,0.001446927],"category_scores_gemma":[0.0001749035,0.00009704514,0.0001344968,0.0001130514,0.0001296996,0.000121879,0.00007812637,0.0003547056,0.0001766363],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001523684,"about_ca_system_score_gemma":0.00009454048,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006467861,"about_ca_topic_score_gemma":0.000791222,"domain_scores_codex":[0.9999059,0.0000129923,0.000006891353,0.00002031478,0.00002852959,0.00002534197],"domain_scores_gemma":[0.9998984,0.00003501875,0.00002311421,0.00001200451,0.000008786245,0.00002255095],"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":[0.0001157975,0.00003076157,0.0005437195,0.000009731278,0.000006291373,0.00002311728,0.00000780525,0.00007935423,0.9973729,0.00005522111,0.00001992321,0.001735423],"study_design_scores_gemma":[0.00001855218,0.0005162581,0.01639326,0.000004168694,0.00002438215,0.0003263469,0.00003384365,0.001799598,0.9799171,0.0001012127,0.0008584048,0.000006855529],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9981933,0.000336081,0.0005072938,0.0000208014,0.000007230969,0.000005952704,0.0001469012,0.00002661659,0.0007556846],"genre_scores_gemma":[0.9987457,0.0001401931,0.0004878706,0.00002809134,0.000001873067,0.000003122692,0.0000945229,0.00000978367,0.0004887428],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001446927,"threshold_uncertainty_score":0.004840493,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02521374553924265,"score_gpt":0.3197800161432973,"score_spread":0.2945662706040547,"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."}}