{"id":"W3173839943","doi":"10.1038/s41538-021-00097-0","title":"Genomic analysis of Shiga toxin-producing Escherichia coli O157:H7 from cattle and pork-production related environments","year":2021,"lang":"en","type":"article","venue":"npj Science of Food","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":22,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Lethbridge; Alberta Ministry of Agriculture and Forestry; Agriculture and Agri-Food Canada","funders":"Agriculture and Agri-Food Canada; Compute Canada; Alberta Innovates; Alberta Innovates Bio Solutions; Alberta Agriculture and Forestry","keywords":"Biology; Outbreak; Escherichia coli; Shiga toxin; Subtyping; Microbiology; Phylogenetic tree; Toxin; Strain (injury); Veterinary medicine; Gene; Genetics; Virology","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001699729,0.0002561219,0.00019288,0.001234169,0.0005200623,0.0006195032,0.0001912624,0.0001911016,0.0007777065],"category_scores_gemma":[0.0003912622,0.0001273861,0.0002207835,0.001365062,0.0002480884,0.00007370856,0.0002598218,0.0002317408,0.0002078563],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007135774,"about_ca_system_score_gemma":0.0007176275,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0704875,"about_ca_topic_score_gemma":0.09151089,"domain_scores_codex":[0.9997646,0.00001792383,0.000009554318,0.00003910111,0.0000900373,0.00007888081],"domain_scores_gemma":[0.9996178,0.00005136324,0.00006317244,0.00001412782,0.0001505487,0.0001030374],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0006229897,0.0001967539,0.6653582,0.0001253208,0.00007381817,0.001009843,0.001597909,0.0002043261,0.3190008,0.00007546545,0.0001812167,0.01155328],"study_design_scores_gemma":[0.000002310315,0.00009141401,0.9953474,0.000004894969,0.00001428057,0.0002402607,0.0006721212,0.00007050756,0.00323064,0.000005714988,0.0003185573,0.000001804472],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998785,0.0000524863,0.000131828,0.000009640196,0.000002443153,0.000008612768,0.0005876228,0.00000292154,0.0004193381],"genre_scores_gemma":[0.9951984,0.0001325566,0.0004542446,0.00002948536,0.000004810644,0.000009782289,0.003430123,0.000004209185,0.0007362024],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0704875,"threshold_uncertainty_score":0.1401544,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01337352664042942,"score_gpt":0.2557808569179084,"score_spread":0.242407330277479,"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."}}