{"id":"W3118306668","doi":"10.1038/s41467-020-20442-3","title":"HIV-1 diversity considerations in the application of the Intact Proviral DNA Assay (IPDA)","year":2021,"lang":"en","type":"article","venue":"Nature Communications","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":103,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University of British Columbia; AIDS Vancouver; Maple Leaf Medical Clinic; Simon Fraser University","funders":"National Institute of Allergy and Infectious Diseases; National Institute on Drug Abuse; National Institute of Mental Health; National Heart, Lung, and Blood Institute; National Institute on Aging; Canadian Institutes of Health Research; National Cancer Institute; National Institutes of Health; Michael Smith Health Research BC; Massachusetts General Hospital; Foundation for the National Institutes of Health","keywords":"Human immunodeficiency virus (HIV); Computational biology; Integrase; Biology; DNA; Genetics; Virology","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":[0.05077516,0.0007591408,0.001365941,0.001454384,0.0008276374,0.003637328,0.001757658,0.001610875,0.001111733],"category_scores_gemma":[0.05743114,0.0006270135,0.0007310472,0.001080274,0.00352186,0.001908331,0.002184099,0.003282606,0.0005846418],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008200348,"about_ca_system_score_gemma":0.0009418045,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006710431,"about_ca_topic_score_gemma":0.001261454,"domain_scores_codex":[0.9567977,0.03037159,0.001930342,0.003300413,0.006942801,0.0006571757],"domain_scores_gemma":[0.9544355,0.0357918,0.002627946,0.003830832,0.002920821,0.0003931358],"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":[0.002550012,0.0003773542,0.1416493,0.002610313,0.0007689037,0.001644021,0.004232424,0.01358676,0.4108942,0.04000117,0.00527521,0.3764104],"study_design_scores_gemma":[0.0003346733,0.008751678,0.08702241,0.001165908,0.0006585767,0.01187947,0.001521607,0.06286585,0.6623008,0.07010045,0.09293927,0.0004594045],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.228884,0.03343511,0.7089933,0.008949872,0.001586425,0.001615767,0.001160846,0.0006377926,0.01473687],"genre_scores_gemma":[0.7657877,0.003275917,0.2231007,0.003642123,0.0006213308,0.001295572,0.0003107314,0.000164019,0.001801923],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.05077516,"threshold_uncertainty_score":0.2685279,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02345875064453152,"score_gpt":0.2959472014320087,"score_spread":0.2724884507874772,"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."}}