{"id":"W4388706773","doi":"10.1093/jac/dkad346","title":"WGS of a cluster of MDR <i>Shigella sonnei</i> utilizing Oxford Nanopore R10.4.1 long-read sequencing","year":2023,"lang":"en","type":"article","venue":"Journal of Antimicrobial Chemotherapy","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":14,"is_retracted":false,"has_abstract":true,"ca_institutions":"St. Paul's Hospital; University of British Columbia; Providence Health Care","funders":"","keywords":"Shigella sonnei; Biology; Multilocus sequence typing; Microbiology; Whole genome sequencing; Genetics; Antibiotic resistance; Tigecycline; Genotype; Shigella; Genome; Antimicrobial; Gene; Antibiotics; Escherichia coli","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004156959,0.0005090417,0.0004243386,0.0009115001,0.0003579644,0.000466353,0.0003148612,0.0003610207,0.001239541],"category_scores_gemma":[0.0009384772,0.0002911229,0.0005033934,0.000733754,0.0001947821,0.0002154527,0.000488793,0.0003106413,0.0007224043],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004004899,"about_ca_system_score_gemma":0.0003378994,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003198019,"about_ca_topic_score_gemma":0.006720869,"domain_scores_codex":[0.9995145,0.00004479416,0.00004899982,0.0002146702,0.0001233678,0.00005382296],"domain_scores_gemma":[0.9994418,0.00009998954,0.0001587836,0.00008887793,0.0001618432,0.00004870457],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003388739,0.0000443754,0.05076176,0.0002642651,0.00008309849,0.0004080832,0.0007508674,0.001187487,0.9262674,0.0001171081,0.001080026,0.01869664],"study_design_scores_gemma":[0.00002727562,0.000628921,0.5135876,0.0001083525,0.0002274136,0.002477603,0.0008633166,0.01340363,0.4464974,0.0002600602,0.02185391,0.00006458537],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9653377,0.0003030273,0.01873398,0.0001028122,0.00001974877,0.000180297,0.01199975,0.0006683596,0.002654237],"genre_scores_gemma":[0.8668768,0.0003000217,0.08523635,0.0002288243,0.00001619425,0.0002565482,0.0426158,0.0004557228,0.00401367],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003198019,"threshold_uncertainty_score":0.006358802,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01914847326335885,"score_gpt":0.2872537838568729,"score_spread":0.2681053105935141,"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."}}