{"id":"W2976918065","doi":"10.4103/ijmy.ijmy_106_19","title":"A multilocus sequence typing scheme for Mycobacterium abscessus complex (MAB-multilocus sequence typing) using whole-genome sequencing data","year":2019,"lang":"en","type":"article","venue":"International Journal of Mycobacteriology","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":16,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba; Public Health Agency of Canada","funders":"","keywords":"Multilocus sequence typing; Mycobacterium abscessus; rpoB; Biology; Genetics; Genome; Typing; Whole genome sequencing; Subtyping; Nontuberculous mycobacteria; Computational biology; Gene; Mycobacterium; Genotype; Computer science","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":[0.003015535,0.0006153062,0.0004504186,0.002218258,0.0004119732,0.001200186,0.0005921487,0.0005118586,0.001326501],"category_scores_gemma":[0.008213398,0.0002684002,0.0008712262,0.002255144,0.0002506533,0.0006427189,0.0007997513,0.0006628326,0.001307438],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005003869,"about_ca_system_score_gemma":0.001208458,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002119164,"about_ca_topic_score_gemma":0.002419293,"domain_scores_codex":[0.9983053,0.0005313086,0.0002598852,0.0003684742,0.0004191653,0.0001158662],"domain_scores_gemma":[0.9955706,0.00113038,0.00103474,0.0008049606,0.001242,0.0002173568],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00207423,0.000418427,0.3609476,0.00172297,0.0004984637,0.0007788481,0.0009160648,0.01988077,0.245579,0.002993533,0.01177326,0.3524168],"study_design_scores_gemma":[0.0004411194,0.002279786,0.3919997,0.000702146,0.0007741163,0.002432767,0.0007427854,0.275921,0.1734886,0.007114562,0.143791,0.0003124636],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.5097315,0.001249091,0.4374109,0.0004549678,0.0001997691,0.001584553,0.03770588,0.007792753,0.003870655],"genre_scores_gemma":[0.3808337,0.0003006583,0.5714881,0.0002244546,0.00004335189,0.0005716399,0.04561992,0.0002192326,0.0006988562],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.003015535,"threshold_uncertainty_score":0.01594788,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1899526107144696,"score_gpt":0.4079480712454459,"score_spread":0.2179954605309763,"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."}}