{"id":"W2941864504","doi":"10.1099/acmi.0.000017","title":"Application of whole genome sequencing to query a potential outbreak of Elizabethkingia anophelis in Ontario, Canada","year":2019,"lang":"en","type":"article","venue":"Access Microbiology","topic":"Infections and bacterial resistance","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Public Health Ontario","funders":"","keywords":"Outbreak; Whole genome sequencing; Biology; Multilocus sequence typing; Genome; Genetics; rpoB; Typing; Computational biology; Gene; Virology; Genotype","routes":{"ca_aff":true,"ca_fund":false,"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":[],"consensus_categories":[],"category_scores_codex":[0.00008267439,0.00008647272,0.0001817458,0.0000536937,0.00001476639,0.000005136909,0.0002056158,0.0001096401,0.00004864643],"category_scores_gemma":[0.00001249594,0.00008719238,0.00003429567,0.00009281724,0.00002635575,0.000004701275,0.0001260854,0.00005517533,0.000002828036],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001267809,"about_ca_system_score_gemma":0.0005400311,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.8118793,"about_ca_topic_score_gemma":0.9502283,"domain_scores_codex":[0.9993008,0.00003044455,0.0002513753,0.0002300963,0.00002501362,0.00016224],"domain_scores_gemma":[0.9995177,0.000005834139,0.0001239021,0.0002351896,0.00009490528,0.00002247148],"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":[0.00006704553,0.00001527372,0.03257481,0.00002143271,0.00001576525,6.093803e-7,0.00002116521,0.000665342,0.9664109,0.000015826,0.00007033834,0.000121475],"study_design_scores_gemma":[0.0003776886,0.0001445586,0.1007693,0.00001977101,0.000008741277,0.00001145098,0.00003191007,0.000006735519,0.8624286,0.00001422185,0.03602179,0.000165164],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983081,0.00006048437,0.0008839053,0.0000289769,0.0001808097,0.0002129864,0.00008945321,0.000001777044,0.000233525],"genre_scores_gemma":[0.9991182,0.000005989352,0.0001827628,0.0001369596,0.00002786654,0.00001214686,0.0002853854,0.000007908569,0.0002227545],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1383491,"threshold_uncertainty_score":0.3555602,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.004230521854370876,"score_gpt":0.2126208890701227,"score_spread":0.2083903672157519,"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."}}