{"id":"W4396641881","doi":"10.1111/zph.13140","title":"Antimicrobial resistance, virulence potential and genomic epidemiology of global genomes of the rare <i>Salmonella enterica</i> serovar <scp>O</scp>rion","year":2024,"lang":"en","type":"article","venue":"Zoonoses and Public Health","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Conselho Nacional de Desenvolvimento Científico e Tecnológico; Coordenação de Aperfeiçoamento de Pessoal de Nível Superior; Fundação de Amparo à Pesquisa do Estado de São Paulo","keywords":"Biology; Virulence; Multilocus sequence typing; Genomic island; Salmonella enterica; Genome; Microbiology; Genetics; Plasmid; Salmonella; Antibiotic resistance; Gene; Genotype; Antibiotics; Bacteria","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001001101,0.0001776354,0.0005296313,0.00001543,0.0001770694,0.00002569221,0.0002665361,0.0001454653,0.00001778353],"category_scores_gemma":[0.0002013116,0.00007112009,0.0001285812,0.0003392082,0.0003888012,0.00009322891,0.0002132037,0.0001400141,0.000002456272],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003864082,"about_ca_system_score_gemma":0.0000887167,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008604467,"about_ca_topic_score_gemma":0.0003780363,"domain_scores_codex":[0.9977561,0.00059815,0.0006144333,0.0004445923,0.00008743295,0.000499343],"domain_scores_gemma":[0.9985744,0.000793745,0.0002901115,0.00010703,0.0000497102,0.0001850023],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00004607251,0.0001369468,0.8588219,0.000616547,0.0001030021,0.000007018045,0.0004010116,0.000005361588,0.03200063,0.01041146,0.01014705,0.08730305],"study_design_scores_gemma":[0.0001239466,0.0002013832,0.9249481,0.00008932496,0.00001446772,0.00007284522,0.0003784823,0.00006927142,0.00006345919,0.001745102,0.07221637,0.00007727606],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.970662,0.02055717,0.00003828826,0.007558952,0.0003479215,0.0002075477,0.0003319484,0.00003219979,0.0002639641],"genre_scores_gemma":[0.990235,0.007676811,0.0001663874,0.001602529,0.0001822579,0.000004243427,0.00003039996,0.000001852858,0.0001005297],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08722577,"threshold_uncertainty_score":0.2900193,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03006438655184106,"score_gpt":0.2600283169699741,"score_spread":0.2299639304181331,"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."}}