{"id":"W3185832420","doi":"10.1016/j.meegid.2021.105018","title":"Campylobacter coli isolated in Brazil typed by core genome Multilocus Sequence Typing shows high genomic diversity in a global context","year":2021,"lang":"en","type":"article","venue":"Infection Genetics and Evolution","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":7,"is_retracted":false,"has_abstract":false,"ca_institutions":"Public Health Agency of Canada","funders":"Conselho Nacional de Desenvolvimento Científico e Tecnológico; Fundação de Amparo à Pesquisa do Estado de São Paulo; Public Health Agency of Canada","keywords":"Multilocus sequence typing; Context (archaeology); Biology; Campylobacter; Typing; Genetics; Whole genome sequencing; Genome; Campylobacter coli; Computational biology; Sequence (biology); Evolutionary biology; Genotype; Gene; Bacteria","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000159084,0.0001203875,0.0001838437,0.00001569213,0.0001443403,0.00002469002,0.00006112818,0.0001844137,0.00007263306],"category_scores_gemma":[0.00003480775,0.00007365691,0.00003619896,0.0003195689,0.00005551927,0.00005927122,0.000148004,0.0001157291,0.00001547983],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002727714,"about_ca_system_score_gemma":0.00001783914,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.008932861,"about_ca_topic_score_gemma":0.02820853,"domain_scores_codex":[0.9990143,0.0001297899,0.0002258579,0.0003212552,0.00005748711,0.0002513294],"domain_scores_gemma":[0.9996915,0.00004880187,0.00007371175,0.00004761514,0.00006981297,0.00006853823],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00003800681,0.0000446229,0.7934884,0.000003559899,0.000006380775,0.000004906733,0.00004264897,0.0001399585,0.2014877,0.00005049021,0.00005232412,0.004640968],"study_design_scores_gemma":[0.0003396812,0.00009482261,0.995765,0.00001101316,0.000007733114,0.00002367974,0.00006023289,0.001546774,0.00009688524,0.0006496195,0.001258433,0.0001460922],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9982687,0.0009589494,0.0000536576,0.0001901317,0.0002302231,0.0001374544,0.0000710645,0.00002400677,0.00006582988],"genre_scores_gemma":[0.9989379,0.0005688072,0.00001907448,0.0002679013,0.00005784214,0.000005285111,0.00009945341,9.009999e-7,0.00004280089],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2022766,"threshold_uncertainty_score":0.9976667,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03339285511630745,"score_gpt":0.2514043329710939,"score_spread":0.2180114778547865,"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."}}