{"id":"W2029925329","doi":"10.1002/ibd.20966","title":"Phylogenetic analysis of inflammatory bowel disease associated Escherichia coli and the fimH virulence determinant","year":2009,"lang":"en","type":"article","venue":"Inflammatory Bowel Diseases","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":55,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba","funders":"","keywords":"Multilocus sequence typing; Biology; Phylogenetic tree; Escherichia coli; Microbiology; Pathogenic Escherichia coli; Genetics; Virulence; Sequence analysis; Gene; Phylogenetics; Typing; Allele; Locus (genetics); Housekeeping gene; Genotype","routes":{"ca_aff":true,"ca_fund":false,"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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004015393,0.0003558082,0.0004470788,0.0001568013,0.0002771877,0.0000632439,0.0004821583,0.000123846,0.00001960123],"category_scores_gemma":[0.001259882,0.0002726479,0.0003942595,0.0003708054,0.0009422018,0.00001664224,0.0002811874,0.0001468502,0.000003417893],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003297887,"about_ca_system_score_gemma":0.0002788875,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001208644,"about_ca_topic_score_gemma":0.00007381813,"domain_scores_codex":[0.9975422,0.0004166648,0.0005292827,0.0005460127,0.0004778198,0.0004880126],"domain_scores_gemma":[0.9981474,0.0001459709,0.0003215956,0.0007627258,0.0002578786,0.0003644065],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.002192913,0.0003753261,0.9054798,0.0001712003,0.002404803,0.0001065907,0.000250751,0.001163156,0.08535603,0.0003860146,0.0008331547,0.001280243],"study_design_scores_gemma":[0.001282541,0.0001206344,0.9916596,0.00004504554,0.001193178,4.511227e-7,0.0000841619,0.003242292,0.001356552,0.0002012761,0.000486844,0.0003274086],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9897975,0.009035497,0.00003288596,0.0001937849,0.00005034753,0.0005335646,0.0001876039,0.00003410885,0.0001347101],"genre_scores_gemma":[0.997393,0.001640636,0.00003668503,0.0004376809,0.00008990279,0.0001291898,0.00006944914,0.00002462727,0.0001788181],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0861798,"threshold_uncertainty_score":0.9999726,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.006694729416972884,"score_gpt":0.2480235299616615,"score_spread":0.2413288005446886,"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."}}