{"id":"W4402134971","doi":"10.1093/ve/veae070","title":"Phylogenetic evidence of extensive spatial mixing of diverse HIV-1 group M lineages within Cameroon but not between its neighbours","year":2024,"lang":"en","type":"article","venue":"Virus Evolution","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Infection and Immunity","funders":"Agence Nationale de Recherches sur le Sida et les Hépatites Virales; Bill and Melinda Gates Foundation; European Commission; Gilead Sciences; Wellcome Trust; Science for Africa Foundation","keywords":"Phylogenetic tree; Pandemic; Evolutionary biology; Phylogenetics; Diversity (politics); Biology; Perspective (graphical); Transmission (telecommunications); Human immunodeficiency virus (HIV); Geography; Psychological intervention; Clade; Virology; Coronavirus disease 2019 (COVID-19); Genetics; Computer science; Sociology; Disease; Medicine; Anthropology; Gene","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005594888,0.0002577377,0.0002190157,0.001348326,0.0009682803,0.0005582346,0.0001832193,0.000294823,0.00179875],"category_scores_gemma":[0.001272261,0.0001473437,0.0001626058,0.001402969,0.000655901,0.0002876518,0.0005064679,0.0003011212,0.0001428275],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003391627,"about_ca_system_score_gemma":0.0002846094,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01126983,"about_ca_topic_score_gemma":0.01116056,"domain_scores_codex":[0.9996085,0.0001291285,0.00001775006,0.00011911,0.00002052297,0.0001051275],"domain_scores_gemma":[0.9993375,0.0002214118,0.0002508305,0.00005391663,0.00006227643,0.00007399587],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0005777199,0.00003392875,0.9367315,0.00008653753,0.00007765879,0.0008845801,0.002366407,0.0003491393,0.04280933,0.0003871235,0.0001998434,0.01549611],"study_design_scores_gemma":[0.00001168221,0.00009075754,0.9938333,0.00004761647,0.00003409844,0.001034696,0.00188041,0.0005982733,0.001209555,0.0001014021,0.00114835,0.000009839436],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987291,0.0003104856,0.0003321907,0.0000264501,0.000004953238,0.00001079129,0.0001449939,0.000002762113,0.0004382908],"genre_scores_gemma":[0.9995258,0.00006293021,0.0002610224,0.0000129873,0.000002763104,0.000004751297,0.0000836849,9.675351e-7,0.00004511518],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01126983,"threshold_uncertainty_score":0.02240849,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03815341359641839,"score_gpt":0.2924649535329648,"score_spread":0.2543115399365464,"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."}}