{"id":"W2544696205","doi":"10.1038/ng.3704","title":"Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages","year":2016,"lang":"en","type":"article","venue":"Nature Genetics","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":481,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Ontario","funders":"National Institute of Allergy and Infectious Diseases; Francis Crick Institute; Wellcome Trust; National Natural Science Foundation of China; Universität Basel; Deutsches Zentrum für Infektionsforschung; National Institutes of Health; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; Novartis Foundation; SystemsX.ch; World Health Organization; National Science Foundation","keywords":"Generalist and specialist species; Biology; Lineage (genetic); Obligate; Mycobacterium tuberculosis; Tuberculosis; Population; Evolutionary biology; Niche; Genetics; Gene; Ecology; Demography","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":[0.0002967225,0.0002886765,0.0005286789,0.0002077612,0.0001022828,0.00004178906,0.000228424,0.00083848,0.00008749047],"category_scores_gemma":[0.002073941,0.0001782608,0.0001507129,0.0005578037,0.0003293655,0.00005574039,0.0002161559,0.0007037195,0.00002341515],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005762627,"about_ca_system_score_gemma":0.0001027295,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002726713,"about_ca_topic_score_gemma":0.00003768186,"domain_scores_codex":[0.9976895,0.0001707739,0.0004514513,0.0005615167,0.000454061,0.0006726541],"domain_scores_gemma":[0.9977843,0.0004773524,0.00009370549,0.0005570764,0.0004957296,0.0005918425],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.000575526,0.0002021315,0.8968996,0.00009073699,0.0003196175,0.000118592,0.00001068336,0.000001487529,0.05375452,0.0001700601,0.03612534,0.01173165],"study_design_scores_gemma":[0.001701834,0.0005408535,0.9054244,0.00009241598,0.0001282993,0.0001275831,0.000006639733,0.0001176576,0.004262852,0.0001187758,0.08726243,0.0002163192],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9691507,0.00759728,0.000572863,0.02103008,0.0002244692,0.0003892525,0.0005636392,0.0001526357,0.0003191233],"genre_scores_gemma":[0.9772123,0.01596399,0.003411402,0.002442579,0.0004989546,0.00001468283,0.0003089228,0.00003209894,0.0001151175],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05113709,"threshold_uncertainty_score":0.7269266,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0126428558024797,"score_gpt":0.2990079224188562,"score_spread":0.2863650666163765,"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."}}