{"id":"W2755223414","doi":"10.1128/genomea.00963-17","title":"Complete Genome Sequence of Mycobacterium chimaera SJ42, a Nonoutbreak Strain from an Immunocompromised Patient with Pulmonary Disease","year":2017,"lang":"en","type":"article","venue":"Genome Announcements","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia Hospital; St. Paul's Hospital; Shared Health; BC Centre for Disease Control; Providence Health Care; BC Cancer Agency","funders":"National Institutes of Health; BC Cancer Foundation; Canada Research Chairs; Genome British Columbia; Genome Canada; National Human Genome Research Institute; Michael Smith Health Research BC; Cystic Fibrosis Foundation","keywords":"Whole genome sequencing; Mycobacterium; Biology; Nontuberculous mycobacteria; Opportunistic pathogen; Pulmonary disease; Chimera (genetics); Microbiology; Pneumonia; Disease; Virology; Genome; Gene; Genetics; Bacteria; Virulence; Medicine; Pathology; Internal medicine","routes":{"ca_aff":true,"ca_fund":true,"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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0001933466,0.0003810725,0.0006009277,0.0001317337,0.0004183871,0.0001845727,0.0006514779,0.000072813,0.0008953801],"category_scores_gemma":[0.00005656607,0.0003163108,0.0001328257,0.000102493,0.0003447698,0.0005511931,0.0003003518,0.0002345035,0.00009859878],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001796282,"about_ca_system_score_gemma":0.0004352013,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001213411,"about_ca_topic_score_gemma":0.00002377386,"domain_scores_codex":[0.997128,0.00008835364,0.0005267613,0.0007079871,0.0008338818,0.0007150099],"domain_scores_gemma":[0.9964225,0.00003232166,0.0004350593,0.001911815,0.0003531022,0.0008451596],"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":[0.003779356,0.001146447,0.1161294,0.0002019265,0.0002756411,0.0008107411,0.000506952,0.000006419106,0.8747474,0.00001352821,0.00001740099,0.002364804],"study_design_scores_gemma":[0.00283953,0.001681504,0.9835519,0.0001918948,0.0001493624,0.00002398398,0.0001336472,0.0001389084,0.0003022079,0.00009907972,0.01050955,0.0003784726],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9758245,0.0002649377,0.00005727312,0.000443154,0.0001328513,0.00140336,0.01983647,0.00004478085,0.001992649],"genre_scores_gemma":[0.9876441,0.0001221144,0.0008624176,0.0004282641,0.0002060739,0.0002083514,0.01030273,0.00004989226,0.0001760099],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8744452,"threshold_uncertainty_score":0.9999289,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04122696567257818,"score_gpt":0.2989189667711356,"score_spread":0.2576920010985574,"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."}}