{"id":"W2966277491","doi":"10.1093/ofid/ofz431","title":"Genomic Epidemiology of Major Extraintestinal Pathogenic Escherichia coli Lineages Causing Urinary Tract Infections in Young Women Across Canada","year":2019,"lang":"en","type":"article","venue":"Open Forum Infectious Diseases","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":41,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University of Manitoba; Public Health Agency of Canada; Provincial Laboratory of Public Health; University of Alberta; BC Centre for Disease Control; Public Health Ontario; University of Guelph; University of British Columbia","funders":"Institute of Infection and Immunity; Canadian Institutes of Health Research; University of Toronto; University of British Columbia; McGill University","keywords":"Multilocus sequence typing; Biology; Epidemiology; Escherichia coli; Genome; Genetics; Medicine; Gene; Genotype","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0005064377,0.0002664939,0.0004916217,0.00004682615,0.0002164368,0.00003080681,0.0003342883,0.0001147849,0.00009923016],"category_scores_gemma":[0.001125937,0.0002684494,0.0001134403,0.0002565311,0.000173168,0.00002330992,0.000844065,0.0002224539,0.00000614187],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003177683,"about_ca_system_score_gemma":0.001006138,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.1333563,"about_ca_topic_score_gemma":0.3447544,"domain_scores_codex":[0.9976971,0.0003288517,0.0004779793,0.0005262075,0.0001284732,0.0008413483],"domain_scores_gemma":[0.998771,0.0002174389,0.0002314915,0.0004396985,0.0001389127,0.000201457],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001383814,0.000747324,0.9557882,0.00006379029,0.0001218215,0.00002607652,0.00007010286,0.0005592336,0.04192309,0.0000357003,0.000264496,0.0002618165],"study_design_scores_gemma":[0.001349876,0.001466695,0.9939178,0.00004598902,0.00002142848,0.0001173709,0.0007679911,0.0001774393,0.0004563864,0.0001224536,0.0012119,0.0003446949],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.995746,0.00135521,0.00004065344,0.0001104731,0.0002237552,0.0008189105,0.0002578878,0.00001544038,0.00143169],"genre_scores_gemma":[0.9985302,0.0002255759,0.00007840902,0.0002612619,0.00006525885,0.0003107309,0.00008450909,0.00003936005,0.0004046584],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2113981,"threshold_uncertainty_score":0.9999768,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01381385526919588,"score_gpt":0.3051470647213962,"score_spread":0.2913332094522003,"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."}}