{"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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002264648,0.0001437679,0.0002707158,0.0001861179,0.00008727729,0.00000766928,0.0001369455,0.0001548783,0.000162989],"category_scores_gemma":[0.0001975791,0.0001225623,0.0001061659,0.000172481,0.0002348985,0.0001034217,0.00009368665,0.0002031403,0.0007034088],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001045515,"about_ca_system_score_gemma":0.0001096992,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002446582,"about_ca_topic_score_gemma":0.0001956325,"domain_scores_codex":[0.9988163,0.0002158728,0.0003109191,0.0002916877,0.00009256153,0.0002726399],"domain_scores_gemma":[0.9992296,0.0002922157,0.0001170996,0.0001939142,0.0001347161,0.00003244695],"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":[0.000280224,0.00007049491,0.01173846,0.0001525204,0.0002898666,0.00001846111,0.0004386835,0.00004681503,0.9783231,0.0001826144,0.0002742717,0.008184455],"study_design_scores_gemma":[0.0006729054,0.000953245,0.1741909,0.0005755843,0.0002097869,0.00001217485,0.0002298767,0.0001491488,0.8226244,0.0000629495,0.0001740938,0.0001448509],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9749138,0.02131755,0.002375602,0.00008011119,0.0003513184,0.0002848718,0.0005970309,0.00003782053,0.00004191693],"genre_scores_gemma":[0.9989545,0.000366186,0.00009846271,0.000006839285,0.00007141159,0.00001569155,0.0001176334,0.00001214671,0.0003570954],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1624524,"threshold_uncertainty_score":0.9041132,"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."}}