{"id":"W3004204695","doi":"10.1099/acmi.mim2019.po0024","title":"Whole genome sequencing reveals genetic diversity in Mycobacterium avium subspecies paratuberculosis population circulating in Irish cattle","year":2020,"lang":"en","type":"article","venue":"Access Microbiology","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"","keywords":"Biology; Genetics; Genetic diversity; Whole genome sequencing; Genome; Paratuberculosis; Population; Reference genome; DNA sequencing; Irish; Subspecies; Evolutionary biology; Mycobacterium; Zoology; Gene","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003092298,0.0001592928,0.0002928115,0.0007239712,0.0002620356,0.0005890869,0.0002138225,0.0004108264,0.0006756934],"category_scores_gemma":[0.0004607668,0.0001788602,0.0003286316,0.000801982,0.0002530155,0.000134153,0.0002808499,0.0003834919,0.0003435326],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004052665,"about_ca_system_score_gemma":0.0002439668,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008283713,"about_ca_topic_score_gemma":0.01360976,"domain_scores_codex":[0.9997003,0.00003441074,0.00001446307,0.0001007608,0.00006276,0.0000873049],"domain_scores_gemma":[0.9997482,0.00006019838,0.00006701105,0.00002228932,0.00004665796,0.0000557676],"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":[0.0008130365,0.0001145448,0.4769563,0.0001361232,0.0001856044,0.0004795296,0.001771589,0.0007018641,0.4960837,0.0001204884,0.0007066741,0.02193043],"study_design_scores_gemma":[0.000005950665,0.0000901542,0.9938542,0.00001448198,0.00003792603,0.0003340798,0.0005418703,0.0004411809,0.00339323,0.00002590275,0.001253185,0.000007930661],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9982322,0.00008298236,0.0002809657,0.00002057596,0.000001896334,0.000003729916,0.0009657704,0.000006906711,0.0004049162],"genre_scores_gemma":[0.9927643,0.000150209,0.00161443,0.0000951535,0.000005899024,0.00001585337,0.004702392,0.00002146176,0.0006301436],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.008283713,"threshold_uncertainty_score":0.01647097,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07246852155954134,"score_gpt":0.3134061398492359,"score_spread":0.2409376182896945,"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."}}