{"id":"W4415647114","doi":"10.3390/bacteria4040055","title":"Genomic Mapping of Brazilian Escherichia coli: Characterizing Shiga Toxin-Producing, Enteropathogenic, and Diffusely Adherent Strains Using an In Silico Approach","year":2025,"lang":"en","type":"article","venue":"Bacteria","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Lethbridge","funders":"Fundação de Amparo à Pesquisa do Estado de Mato Grosso; Conselho Nacional de Desenvolvimento Científico e Tecnológico; Mitacs; Coordenação de Aperfeiçoamento de Pessoal de Nível Superior; Results Driven Agriculture Research","keywords":"In silico; Genome; Context (archaeology); Resistome; Phylogenetic tree; Clade; Escherichia coli; Multilocus sequence typing","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":[0.000507217,0.0007538918,0.0006188617,0.001133395,0.0003148876,0.000672251,0.000374881,0.0003442029,0.0007250897],"category_scores_gemma":[0.001718828,0.0002581728,0.001009809,0.001143301,0.000203568,0.0002170849,0.0005209069,0.0002770952,0.0003188897],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003673709,"about_ca_system_score_gemma":0.0006240583,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00549667,"about_ca_topic_score_gemma":0.005649798,"domain_scores_codex":[0.9996904,0.00006091131,0.00002637124,0.0001219882,0.00005765273,0.00004274152],"domain_scores_gemma":[0.9995665,0.000175458,0.000107561,0.00004528975,0.00006416286,0.00004104395],"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":[0.001058194,0.0004786896,0.2366234,0.001504295,0.0003538993,0.001018651,0.0008005961,0.02668299,0.688273,0.0005529418,0.0006414928,0.04201188],"study_design_scores_gemma":[0.0002322636,0.002268323,0.5917841,0.0004387696,0.001407656,0.003818888,0.002413033,0.2116588,0.168454,0.001493263,0.0159053,0.0001254774],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9856399,0.0005447065,0.008746032,0.0001031767,0.000006838473,0.00008692228,0.003910128,0.0001196897,0.0008426504],"genre_scores_gemma":[0.9585044,0.0007046834,0.02675243,0.0000569471,0.000005342198,0.00009916105,0.0135559,0.00004859798,0.0002725584],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00549667,"threshold_uncertainty_score":0.01092935,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02831089683505343,"score_gpt":0.2837528553893318,"score_spread":0.2554419585542783,"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."}}