{"id":"W4414615571","doi":"10.46756/001c.143984","title":"PATH-SAFE Consortium Recommendations for Genomic Surveillance of Food-Borne Diseases Escherichia Coli and Listeria Monocytogenes","year":2025,"lang":"en","type":"article","venue":"FSA research and evidence.","topic":"Listeria monocytogenes in Food Safety","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"","keywords":"Listeria monocytogenes; Escherichia coli; Multilocus sequence typing; Serotype; Whole genome sequencing; Genome; Metadata; Workflow","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":[],"consensus_categories":[],"category_scores_codex":[0.0007050159,0.0001418718,0.0002333368,0.00008534308,0.0002206477,0.00006682389,0.0002403,0.0001121808,0.00001516241],"category_scores_gemma":[0.0007824465,0.0001371436,0.00005348461,0.0001663271,0.000411609,0.00001421227,0.00055068,0.00007365484,0.000001037466],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002569511,"about_ca_system_score_gemma":0.0002600771,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004831159,"about_ca_topic_score_gemma":0.0001004826,"domain_scores_codex":[0.9985614,0.0002122097,0.0003112504,0.0004652466,0.0001179768,0.0003319569],"domain_scores_gemma":[0.9987413,0.000309413,0.00007985788,0.0004197915,0.0003214874,0.0001281031],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001990614,0.0001083542,0.06159043,0.000817838,0.000213905,0.000001201922,0.00006561328,0.00000415325,0.9134576,0.001917064,0.01396659,0.005866587],"study_design_scores_gemma":[0.003079049,0.004951727,0.2786865,0.0007372735,0.0000822148,0.00001102987,0.0007079568,0.0003124652,0.496292,0.005924285,0.2084556,0.0007599462],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9701909,0.02533732,0.0006762113,0.002425401,0.00018968,0.0006547688,0.000390802,0.000008564757,0.0001263674],"genre_scores_gemma":[0.9885703,0.008889876,0.001334245,0.0001420486,0.00009867612,0.0001956082,0.00009968431,0.00001524227,0.0006542697],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4171657,"threshold_uncertainty_score":0.5592553,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1704751132301465,"score_gpt":0.4152702807477279,"score_spread":0.2447951675175813,"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."}}