{"id":"W4323647869","doi":"10.1017/ash.2023.119","title":"On-demand, hospital-based, severe acute respiratory coronavirus virus 2 (SARS-CoV-2) genomic epidemiology to support nosocomial outbreak investigations: A prospective molecular epidemiology study","year":2023,"lang":"en","type":"article","venue":"Antimicrobial Stewardship & Healthcare Epidemiology","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; Centre Hospitalier de l’Université de Montréal; Université de Montréal","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research; Styrelsen för Internationellt Utvecklingssamarbete; Université de Montréal; Pfizer","keywords":"Epidemiology; Outbreak; Transmission (telecommunications); Molecular epidemiology; Infection control; Medicine; Pandemic; Coronavirus; Virology; Intensive care medicine; Disease; Biology; Infectious disease (medical specialty); Coronavirus disease 2019 (COVID-19); Genotype; Internal medicine; Genetics; Computer science","routes":{"ca_aff":true,"ca_fund":true,"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":["metaresearch","metaepi_narrow","research_integrity","insufficient_payload"],"consensus_categories":["metaepi_narrow","research_integrity"],"category_scores_codex":[0.01960714,0.001509666,0.005610398,0.00170674,0.0008428177,0.00002374218,0.001361736,0.001863957,0.00003404965],"category_scores_gemma":[0.03422945,0.001430461,0.001119422,0.002134854,0.00148647,0.0001799468,0.0009395769,0.003126,0.003644976],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001909582,"about_ca_system_score_gemma":0.003588474,"about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008535724,"about_ca_topic_score_gemma":0.002147908,"domain_scores_codex":[0.9732118,0.01340788,0.004554898,0.003883072,0.0005466177,0.004395728],"domain_scores_gemma":[0.9794104,0.01480446,0.001368238,0.002678601,0.0009108515,0.0008275197],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.004792889,0.001354937,0.8955485,0.0004401043,0.001020041,0.001720444,0.0009615805,0.0002026269,0.04639931,0.003626162,0.04196877,0.00196462],"study_design_scores_gemma":[0.01849697,0.0588517,0.7712386,0.0008125859,0.001020653,0.0007381417,0.0006754887,0.0005618453,0.04671726,0.02673081,0.07034595,0.003810045],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9451271,0.0006241117,0.0008988815,0.04081766,0.001800735,0.008924665,0.0007439831,0.0008564712,0.0002064278],"genre_scores_gemma":[0.5794061,0.00004063619,0.001327996,0.4169076,0.0006382574,0.00126143,0.0001904602,0.000201499,0.00002607457],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3760899,"threshold_uncertainty_score":0.9997652,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1388642659337303,"score_gpt":0.4389274272109001,"score_spread":0.3000631612771698,"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."}}