{"id":"W4416199173","doi":"10.3390/antibiotics14111151","title":"Whole-Genome Analysis of Escherichia coli from One Health Sources: Evaluating Genetic Relatedness and Antimicrobial Resistance Carriage","year":2025,"lang":"en","type":"article","venue":"Antibiotics","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada; BP (Canada); University of Saskatchewan; University of Calgary","funders":"Natural Sciences and Engineering Research Council of Canada; Beef Cattle Research Council; Alberta Beef Producers","keywords":"Jaccard index; Phylogenetic tree; Genetic diversity; Antibiotic resistance; Population; UniFrac; Context (archaeology); Carriage; Gene pool","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":[0.0003501732,0.0002399582,0.0006188767,0.0001666083,0.000159749,0.00005209859,0.0002822597,0.0002450689,0.00001229879],"category_scores_gemma":[0.0001456401,0.0002636294,0.0001427148,0.0007305167,0.0002743624,0.0000057756,0.0001873222,0.0001359611,0.000001996688],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003626624,"about_ca_system_score_gemma":0.0002453584,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000248234,"about_ca_topic_score_gemma":0.0005660575,"domain_scores_codex":[0.9980026,0.0001951435,0.0006610644,0.0006173369,0.0001815493,0.000342339],"domain_scores_gemma":[0.9986185,0.00005009968,0.0004020569,0.0006817695,0.0001617418,0.0000857788],"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":[0.0001334646,0.00008794646,0.09793494,0.0001753477,0.001289018,0.000002288137,0.0001645675,0.0003233021,0.8994364,0.0000835625,0.0001997434,0.0001694752],"study_design_scores_gemma":[0.0009112641,0.0001600213,0.8752971,0.0003520006,0.001333741,4.978486e-7,0.0003006004,0.000653189,0.1191248,0.00007012713,0.001388632,0.0004080019],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9910374,0.003168821,0.004441986,0.0002860744,0.0001648842,0.0002581315,0.0004029696,0.00001633639,0.0002234459],"genre_scores_gemma":[0.9819298,0.0009714389,0.01525029,0.0003710096,0.00006792339,2.669999e-7,0.0005528824,0.00002789836,0.0008284292],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7803115,"threshold_uncertainty_score":0.9999816,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01437792341342611,"score_gpt":0.2818834089431268,"score_spread":0.2675054855297007,"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."}}