{"id":"W3157930708","doi":"10.1038/s41467-021-22760-6","title":"Population genomics provides insights into the evolution and adaptation to humans of the waterborne pathogen Mycobacterium kansasii","year":2021,"lang":"en","type":"article","venue":"Nature Communications","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":47,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill Genome Centre; McGill University Health Centre; McGill University","funders":"Sanming Project of Medicine in Shenzhen; National Health and Medical Research Council; Medical Research Council; National Key Research and Development Program of China; Canadian Institutes of Health Research; National Natural Science Foundation of China; Department of Science and Technology of Sichuan Province; Guangdong Science and Technology Department; Ministry of Science and Technology of the People's Republic of China; National Science and Technology Major Project; Science, Technology and Innovation Commission of Shenzhen Municipality","keywords":"Mycobacterium kansasii; Biology; Adaptation (eye); Population; Genomics; Mycobacterium; Pathogen; Comparative genomics; Human pathogen; Horizontal gene transfer; Microbiology; Genetics; Computational biology; Gene; Bacteria; Genome; Medicine; Environmental health","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":[0.0002115921,0.00009134685,0.0001419596,0.00006811127,0.0003666801,0.00003751889,0.0003366949,0.0001394877,0.000008860881],"category_scores_gemma":[0.0005451108,0.00005499017,0.00006182675,0.0004077183,0.00009735718,0.0001009174,0.0003680356,0.0004374534,0.000003992087],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001680732,"about_ca_system_score_gemma":0.00018473,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004910834,"about_ca_topic_score_gemma":0.005858694,"domain_scores_codex":[0.9989879,0.0002649677,0.0002506413,0.0001592255,0.0002165789,0.0001206781],"domain_scores_gemma":[0.9977781,0.000208963,0.00009033713,0.001399548,0.0004460403,0.00007699391],"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":[0.0002412801,0.0005041179,0.3205926,0.0002278751,0.0001715698,0.000002876902,0.02303031,0.00005099034,0.6112188,0.02889662,0.001383436,0.01367951],"study_design_scores_gemma":[0.0002514385,0.00005086872,0.9789673,0.00009484874,0.00008233604,0.00001225189,0.001135595,0.0006875171,0.003628002,0.001026807,0.01399097,0.00007207576],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9730698,0.004904008,0.0001031465,0.02090932,0.00009328693,0.0005971765,0.00003509973,0.00001901959,0.0002691607],"genre_scores_gemma":[0.9944521,0.0009226525,0.003567534,0.000526419,0.00006262791,0.00008277385,0.0002721139,0.00001240366,0.0001013536],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6583747,"threshold_uncertainty_score":0.3269289,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02362015308874616,"score_gpt":0.2931453622902117,"score_spread":0.2695252092014655,"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."}}