{"id":"W1976439058","doi":"10.1128/jcm.01726-14","title":"Whole-Genome Sequencing of the Mycobacterium tuberculosis Manila Sublineage Results in Less Clustering and Better Resolution than Mycobacterial Interspersed Repetitive-Unit–Variable-Number Tandem-Repeat (MIRU-VNTR) Typing and Spoligotyping","year":2014,"lang":"en","type":"article","venue":"Journal of Clinical Microbiology","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":31,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Ontario; University of Toronto","funders":"","keywords":"Mycobacterium tuberculosis; Variable number tandem repeat; Biology; Typing; Tuberculosis; Genome; Virology; Whole genome sequencing; Tandem repeat; Genetics; Medicine; Genotype; Gene","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":[0.0002675155,0.0004895299,0.0004002477,0.0007205461,0.0004199294,0.0004396558,0.0001771872,0.000247744,0.001120503],"category_scores_gemma":[0.0006536383,0.0001814089,0.0004813495,0.0007480119,0.0001243354,0.0002301712,0.0003349638,0.000301098,0.0004280248],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001347004,"about_ca_system_score_gemma":0.0001693085,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002274239,"about_ca_topic_score_gemma":0.004835916,"domain_scores_codex":[0.9997844,0.00003986386,0.00001988607,0.00007946603,0.00003778654,0.00003864626],"domain_scores_gemma":[0.9996474,0.00006848109,0.0001078101,0.00008322508,0.00005317183,0.00003997309],"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":[0.0003851187,0.00008241589,0.1863973,0.0001226776,0.0001602056,0.0003608899,0.0008522987,0.0005974756,0.7768055,0.0001256471,0.0002298547,0.03388064],"study_design_scores_gemma":[0.00001024254,0.000447579,0.928312,0.0000313882,0.0002075054,0.001913908,0.0006271085,0.001677936,0.05954666,0.0001551312,0.00705037,0.00002014024],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9948921,0.0002541158,0.002825245,0.00002991917,0.000006860493,0.00003159932,0.0009201944,0.00004059867,0.000999365],"genre_scores_gemma":[0.9862854,0.0003538068,0.00859405,0.00006804767,0.00001295636,0.00005852888,0.0036503,0.00004018073,0.00093669],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002274239,"threshold_uncertainty_score":0.004521966,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05152512956520269,"score_gpt":0.3426910163653943,"score_spread":0.2911658868001916,"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."}}