{"id":"W2951337360","doi":"10.1099/mgen.0.000142","title":"Vibrio cholerae genomic diversity within and between patients","year":2017,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":41,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"Canadian Institutes of Health Research; National Institutes of Health; National Institute of Diabetes and Digestive and Kidney Diseases; International Centre for Diarrhoeal Disease Research, Bangladesh; Canada Research Chairs; Styrelsen för Internationellt Utvecklingssamarbete; National Institute of Allergy and Infectious Diseases; Global Affairs Canada; Department for International Development; Robert Wood Johnson Foundation","keywords":"Vibrio cholerae; Cholera; Biology; Horizontal gene transfer; Cholera toxin; Genetics; Plasmid; Transmission (telecommunications); Gene; Population; El Tor; Genetic diversity; Point mutation; Genome; Microbiology; Mutation; Bacteria; Medicine","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":[0.0001362697,0.0001509082,0.0001692796,0.0000253063,0.00099973,0.0001448344,0.0004332306,0.0001091553,0.000005262382],"category_scores_gemma":[0.00007275173,0.0001581711,0.00005336653,0.00001003945,0.0002473264,0.000008334943,0.00301306,0.00009377919,0.00002177765],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004542248,"about_ca_system_score_gemma":0.00004614362,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001439409,"about_ca_topic_score_gemma":0.0001264006,"domain_scores_codex":[0.99915,0.00002801335,0.0001413561,0.0003511657,0.00006393584,0.0002655566],"domain_scores_gemma":[0.9992367,0.000004264991,0.0001283366,0.0004657657,0.00006546936,0.00009947086],"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":[0.00006047827,0.00001643278,0.2631229,0.000009785661,0.00007753044,8.400564e-7,0.0001789802,0.000001666161,0.734772,0.000002256835,0.0006549153,0.001102258],"study_design_scores_gemma":[0.001216844,0.0001395765,0.8740226,0.000005739289,0.00002448489,0.000001293305,0.00001749608,0.000002126697,0.103085,0.00001945914,0.02122978,0.0002355711],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9989214,0.0000818473,0.00003139672,0.0001053585,0.000174804,0.0001987849,0.0001929175,0.000006749156,0.0002867425],"genre_scores_gemma":[0.9983848,0.0001598389,0.0005076033,0.00009144944,0.0003485822,0.000002227162,0.000118798,0.00001976133,0.0003669575],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.631687,"threshold_uncertainty_score":0.7689216,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01789418367661072,"score_gpt":0.2468777602498195,"score_spread":0.2289835765732088,"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."}}