{"id":"W2965059590","doi":"10.1139/cjm-2019-0235","title":"Changes detected in the genome sequences of <i>Escherichia coli</i>, <i>Listeria monocytogenes</i>, <i>Vibrio parahaemolyticus</i>, and <i>Salmonella enterica</i> after serial subculturing","year":2019,"lang":"en","type":"article","venue":"Canadian Journal of Microbiology","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; Health Canada","funders":"Natural Sciences and Engineering Research Council of Canada; Health Canada","keywords":"Vibrio parahaemolyticus; Biology; Genome; Listeria monocytogenes; Salmonella enterica; Escherichia coli; Subtyping; Whole genome sequencing; Genetics; Salmonella; Microbiology; Multilocus sequence typing; Gene; Bacteria; Genotype","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":true,"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":[0.0001521845,0.0002069567,0.0001992984,0.0004143,0.0001669381,0.0003287494,0.0001306529,0.0002720376,0.0004794165],"category_scores_gemma":[0.0004293521,0.0001356421,0.0002890327,0.0005454934,0.0001914737,0.0001595256,0.0001705451,0.0003093663,0.000147514],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002273384,"about_ca_system_score_gemma":0.000259568,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002909268,"about_ca_topic_score_gemma":0.005111859,"domain_scores_codex":[0.9997897,0.00002344532,0.00001561965,0.00007124332,0.00006531597,0.00003472357],"domain_scores_gemma":[0.9997359,0.00005479824,0.00009657537,0.00003159241,0.00005277213,0.00002836937],"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":[0.00007516565,0.00001890395,0.01048566,0.00003125047,0.00001276105,0.00006416218,0.00006531551,0.00007656202,0.9858034,0.00002146804,0.00004145135,0.003303889],"study_design_scores_gemma":[0.000004061615,0.000348664,0.5788639,0.0000119656,0.00007537677,0.0006654214,0.0003118788,0.0006172094,0.4168535,0.00004368534,0.002190238,0.00001403431],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9965814,0.0002933999,0.001320043,0.0000263359,0.000006591772,0.0000146163,0.001006211,0.00002641337,0.0007250587],"genre_scores_gemma":[0.9894525,0.0004394407,0.004964255,0.00006900359,0.000003569297,0.00003439675,0.003727506,0.00001794143,0.001291476],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002909268,"threshold_uncertainty_score":0.005784631,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01792879211408612,"score_gpt":0.2023022133209967,"score_spread":0.1843734212069106,"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."}}