{"id":"W7119564497","doi":"","title":"Prediction of genetic relatedness of Escherichia coli using neighbour typing: A tool for rapid outbreak detection","year":2025,"lang":"en","type":"article","venue":"","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Canadian Institutes of Health Research; Joint Programming Initiative on Antimicrobial Resistance; Agence Nationale de la Recherche; Pfizer","keywords":"Escherichia coli; Outbreak; Identification (biology); Genome; Enterobacteriaceae","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001825989,0.0009238374,0.001051664,0.003350987,0.0004682276,0.001267314,0.0008008967,0.001080813,0.002949096],"category_scores_gemma":[0.008254776,0.0004703539,0.0008105414,0.002109332,0.0002567534,0.0008542646,0.0007667705,0.0009979013,0.002384301],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002399054,"about_ca_system_score_gemma":0.0003476155,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001297733,"about_ca_topic_score_gemma":0.001540152,"domain_scores_codex":[0.9988311,0.0003034729,0.0001002239,0.0002822357,0.0004201102,0.00006281178],"domain_scores_gemma":[0.9918105,0.00529699,0.001140841,0.0004622917,0.0008621966,0.0004272402],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001702991,0.0006601478,0.256868,0.001041786,0.0004179862,0.000820647,0.0006522751,0.0132604,0.384317,0.001084355,0.003568163,0.3356062],"study_design_scores_gemma":[0.0002265583,0.002018448,0.3276902,0.0002610492,0.0009958124,0.004678743,0.00110947,0.4554305,0.18077,0.01008991,0.01633578,0.0003934049],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.5623242,0.001205557,0.4202606,0.0003561184,0.0001672465,0.0004349218,0.006616856,0.003724242,0.004910151],"genre_scores_gemma":[0.6677169,0.0006092609,0.3234152,0.0001037566,0.00007523705,0.0001362154,0.005782836,0.0002097441,0.001950839],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003350987,"threshold_uncertainty_score":0.009865701,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02306452644663132,"score_gpt":0.2819839937171201,"score_spread":0.2589194672704888,"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."}}