{"id":"W2998923716","doi":"10.1016/j.tube.2020.101899","title":"Comparative genomics shows differences in the electron transport and carbon metabolic pathways of Mycobacterium africanum relative to Mycobacterium tuberculosis and suggests an adaptation to low oxygen tension","year":2020,"lang":"en","type":"article","venue":"Tuberculosis","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":27,"is_retracted":false,"has_abstract":true,"ca_institutions":"Global Institute for Water Security","funders":"European Research Council; Medical Research Council; European and Developing Countries Clinical Trials Partnership; Research Councils UK","keywords":"Mycobacterium tuberculosis; Biology; Tuberculosis; Genetics; In silico; Lineage (genetic); Comparative genomics; Adaptation (eye); Gene; Mutation; Phenotype; Mycobacterium; Genomics; Genome; Bacteria","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":[0.0001671085,0.0001922966,0.0002206848,0.0007733897,0.0002979618,0.0003024387,0.0001303002,0.000330939,0.001334561],"category_scores_gemma":[0.0005846474,0.00009069128,0.000214832,0.0008152059,0.0002541227,0.0002417691,0.0002841447,0.0002640638,0.0002067258],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000142207,"about_ca_system_score_gemma":0.0001334824,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001012162,"about_ca_topic_score_gemma":0.001074478,"domain_scores_codex":[0.9998448,0.00003627896,0.00001005277,0.0000432994,0.0000276941,0.00003798132],"domain_scores_gemma":[0.9997594,0.00008564836,0.0000871623,0.00001573555,0.00001967569,0.00003248295],"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":[0.0005244314,0.00006510485,0.06545013,0.0003460792,0.00009814839,0.0006358981,0.0009000803,0.0003086139,0.9061226,0.0005520053,0.0001178194,0.02487898],"study_design_scores_gemma":[0.00001940548,0.0005048112,0.9492128,0.00007298397,0.0001080045,0.004501426,0.000895794,0.0008684333,0.03622731,0.0008469967,0.006720493,0.0000214342],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9969007,0.001495088,0.0006101726,0.00007927166,0.000003739088,0.000005611655,0.0003043097,0.000008678149,0.0005925458],"genre_scores_gemma":[0.9975903,0.0006603766,0.001018033,0.00004477355,0.000005837152,0.000006307976,0.0004648401,0.000005387159,0.0002042005],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001334561,"threshold_uncertainty_score":0.004464507,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04761099517448883,"score_gpt":0.2871745089628769,"score_spread":0.2395635137883881,"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."}}