{"id":"W3195620685","doi":"10.1128/msystems.00889-21","title":"A Combination of Metagenomic and Cultivation Approaches Reveals Hypermutator Phenotypes within Vibrio cholerae-Infected Patients","year":2021,"lang":"en","type":"article","venue":"mSystems","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":16,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill Genome Centre; Université de Montréal; McGill University","funders":"National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; Fogarty International Center; National Institutes of Health; Government of Canada","keywords":"Vibrio cholerae; Biology; Metagenomics; Nonsynonymous substitution; Cholera; Genome; Genetics; Whole genome sequencing; Asymptomatic carrier; DNA sequencing; Microbiology; Gene; Virology; Asymptomatic; Medicine; Bacteria","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003028062,0.000307619,0.0004066545,0.0007030874,0.000250419,0.00059708,0.0001933505,0.000373917,0.0007749426],"category_scores_gemma":[0.0009182657,0.000185631,0.0003056285,0.0005621336,0.0002588797,0.0002265365,0.000490072,0.0004083425,0.0001525516],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002173294,"about_ca_system_score_gemma":0.0001988067,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001158708,"about_ca_topic_score_gemma":0.001885417,"domain_scores_codex":[0.9996308,0.00006359653,0.00002536539,0.0001376957,0.00007713225,0.00006537737],"domain_scores_gemma":[0.9997125,0.0000654051,0.00009162466,0.0000328358,0.00004662263,0.00005102278],"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":[0.0005006707,0.00007286137,0.1832906,0.0001040831,0.0001577544,0.000573169,0.0007536813,0.0002916876,0.8015264,0.0001551837,0.0001665215,0.01240738],"study_design_scores_gemma":[0.00002001336,0.000910559,0.859822,0.00004950961,0.0002645767,0.004426547,0.002225418,0.002030647,0.1270185,0.0005258359,0.002656275,0.00005011805],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9970961,0.0003069737,0.001536438,0.0000968426,0.00001100391,0.00001792885,0.0005102979,0.00002199883,0.0004024429],"genre_scores_gemma":[0.9972798,0.0001863547,0.001778984,0.00007413641,0.000007780932,0.00001220683,0.0004158822,0.00001599778,0.0002290218],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001158708,"threshold_uncertainty_score":0.002592444,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02401376363803187,"score_gpt":0.241802595847384,"score_spread":0.2177888322093521,"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."}}