{"id":"W2045967422","doi":"10.1006/viro.2001.0876","title":"Human Immunodeficiency Virus Type 1 Clade A and D Neurotropism: Molecular Evolution, Recombination, and Coreceptor Use","year":2001,"lang":"en","type":"article","venue":"Virology","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":24,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Calgary","funders":"Medical Research Council; Alberta Heritage Foundation for Medical Research; National Institute of Mental Health; Howard Hughes Medical Institute","keywords":"Biology; Clade; Phylogenetic tree; Virology; Nonsynonymous substitution; Virus; Phylogenetics; Genetics; Hypervariable region; Gene; Genome","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":[0.00007426518,0.0001329338,0.0001846783,0.00013418,0.0002707019,0.00001909889,0.0000875499,0.0001818712,0.0004274768],"category_scores_gemma":[0.00008988519,0.0001187143,0.0000237331,0.0001293791,0.0003881562,0.00008452022,0.00009037564,0.0002052704,0.0004162999],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003231905,"about_ca_system_score_gemma":0.0000291669,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003922825,"about_ca_topic_score_gemma":0.0000563263,"domain_scores_codex":[0.9989033,0.000248172,0.0001654077,0.0003093445,0.00002708975,0.0003467335],"domain_scores_gemma":[0.9995919,0.00005933279,0.0000479142,0.0001975736,0.00006712137,0.00003619077],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001444206,0.0001955688,0.0198819,0.000004114958,0.00008172139,0.000064851,0.0001396264,9.798684e-7,0.9715329,0.004754541,0.001256712,0.001942604],"study_design_scores_gemma":[0.003594456,0.002621247,0.9073146,0.000007573923,0.00006178701,0.001047502,0.00004672038,0.00001406127,0.006038348,0.002571568,0.07640947,0.0002726855],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993205,0.005458027,0.00009745469,0.0005162823,0.0001696057,0.0002075648,0.00001917728,0.00004588894,0.0002810553],"genre_scores_gemma":[0.9976144,0.0005515791,0.00003193129,0.0001871093,0.000006895177,0.00002289146,0.00009630316,0.00001242364,0.001476467],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9654946,"threshold_uncertainty_score":0.5350832,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01737159442436588,"score_gpt":0.2608890771805419,"score_spread":0.243517482756176,"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."}}