{"id":"W3137656879","doi":"10.3390/jof7030240","title":"Genomic Epidemiology of Candida auris in Qatar Reveals Hospital Transmission Dynamics and a South Asian Origin","year":2021,"lang":"en","type":"article","venue":"Journal of Fungi","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":32,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"","keywords":"Candida auris; Outbreak; Transmission (telecommunications); Molecular epidemiology; Biology; Multiple drug resistance; Epidemiology; Drug resistance; Genotype; Genetics; Microbiology; Virology; Medicine; Gene; Antifungal","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008747017,0.00009388486,0.0006403151,0.00009889709,0.00001924441,0.000002263461,0.00005370551,0.0001094922,0.00007941596],"category_scores_gemma":[0.000399932,0.00007187046,0.0001438054,0.000126514,0.00006352489,0.00005335336,0.00001354824,0.0003134065,0.000001099076],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001319299,"about_ca_system_score_gemma":0.0003169294,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003263007,"about_ca_topic_score_gemma":0.0000886537,"domain_scores_codex":[0.9987436,0.0001026105,0.0007046374,0.0001408563,0.0001299651,0.0001783346],"domain_scores_gemma":[0.9991099,0.000156605,0.0002968325,0.0001413201,0.0001369273,0.0001583683],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0004033591,0.0001078741,0.9788441,0.0001775967,0.00004961338,0.0003411439,0.0008456713,0.000003681665,0.008799702,0.0001668498,0.000163134,0.0100973],"study_design_scores_gemma":[0.001164659,0.0004845177,0.9949895,0.0004122411,0.00008181234,0.0001608408,0.001092673,0.0002570397,0.0004285004,0.0006114201,0.000246655,0.00007011215],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9873784,0.009258328,0.001307822,0.001629677,0.0000916998,0.0000816317,0.00001648209,0.00000212756,0.0002337959],"genre_scores_gemma":[0.9942333,0.001413377,0.003850406,0.0001102759,0.00007736587,3.525064e-7,0.000005233957,0.000008401946,0.0003013082],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01614545,"threshold_uncertainty_score":0.2930792,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01811482584289761,"score_gpt":0.2964682015089391,"score_spread":0.2783533756660415,"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."}}