{"id":"W3100471207","doi":"10.1155/2020/7092053","title":"Investigation of Two <i>Mycobacterium abscessus</i> Outbreaks in Quebec Using Whole Genome Sequencing","year":2020,"lang":"en","type":"article","venue":"BioMed Research International","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ministère de la Santé et des Services Sociaux (Québec); Ottawa Public Health; University of Manitoba; Institut National de Santé Publique du Québec; Centre Hospitalier Universitaire Sainte-Justine; Public Health Agency of Canada","funders":"","keywords":"Outbreak; Multilocus sequence typing; Mycobacterium abscessus; Genotyping; Nontuberculous mycobacteria; Biology; Typing; Whole genome sequencing; Housekeeping gene; Genotype; Genome; Virology; Microbiology; Mycobacterium; Genetics; Gene; Bacteria","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":[0.001063665,0.0001363546,0.0002803329,0.0008112771,0.00005604992,0.00008565171,0.0003493939,0.0000944858,0.0004872986],"category_scores_gemma":[0.0009952307,0.0001277619,0.00008522889,0.001025264,0.0003189146,0.0003277729,0.0002678644,0.0004779444,0.00009033002],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007513661,"about_ca_system_score_gemma":0.001046934,"about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01537576,"about_ca_topic_score_gemma":0.0008399411,"domain_scores_codex":[0.996975,0.000221451,0.0004973143,0.000389298,0.001421085,0.000495876],"domain_scores_gemma":[0.9982106,0.0002099371,0.0001004798,0.0002127103,0.0007632212,0.0005030705],"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":[0.0002974425,0.00004187626,0.09164721,0.0001797039,0.00005473325,0.0001182504,0.0008498525,0.00001922167,0.9052698,0.0001640454,0.0008788146,0.0004790401],"study_design_scores_gemma":[0.01185498,0.001236023,0.3989571,0.001383482,0.00005440943,0.0001069282,0.002461731,0.02953837,0.4933617,0.0009838588,0.0593104,0.0007510519],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9855847,0.0001107591,0.0001357557,0.0116379,0.000219344,0.0004528041,0.0001687689,0.00003011163,0.001659904],"genre_scores_gemma":[0.9962854,0.00005568701,0.001598409,0.000451326,0.0008022839,0.00003761737,0.0003814783,0.00002515124,0.0003625949],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4119082,"threshold_uncertainty_score":0.991181,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1662481702490161,"score_gpt":0.3927465919210679,"score_spread":0.2264984216720519,"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."}}