{"id":"W3134588154","doi":"10.1186/s12864-021-07487-4","title":"Genome-wide association analysis identified both RNA-seq and DNA variants associated to paratuberculosis in Canadian Holstein cattle ‘in vitro’ experimentally infected macrophages","year":2021,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":36,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph; Agriculture and Agri-Food Canada","funders":"Agriculture and Agri-Food Canada; Natural Sciences and Engineering Research Council of Canada; Canadian Network for Research and Innovation in Machining Technology, Natural Sciences and Engineering Research Council of Canada; Compute Canada","keywords":"Paratuberculosis; Biology; Genetics; Transcriptome; Genetic predisposition; Genetic variation; DNA microarray; Genome-wide association study; Population; Genetic association; Gene; Genome; Single-nucleotide polymorphism; SNP; Genotype; Mycobacterium; Gene expression","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"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":[0.0003363071,0.0001854848,0.0003133502,0.0006597435,0.000892128,0.0006661304,0.000315973,0.0004167077,0.002484273],"category_scores_gemma":[0.0004115726,0.0001414466,0.0003045053,0.0008778827,0.0003836958,0.00006893463,0.0002228864,0.0003980823,0.0001738467],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001250812,"about_ca_system_score_gemma":0.0009339151,"about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.2446311,"about_ca_topic_score_gemma":0.4777668,"domain_scores_codex":[0.9995286,0.00002363036,0.00001318874,0.0001974986,0.0001155407,0.0001213786],"domain_scores_gemma":[0.9996769,0.00009758964,0.00006075432,0.00002233275,0.00009133438,0.00005111793],"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":[0.001463284,0.00008258344,0.6612217,0.0001790446,0.0005853623,0.0006571207,0.0008507777,0.0008250594,0.3208071,0.0002800431,0.001874857,0.01117316],"study_design_scores_gemma":[0.00001042478,0.0000366782,0.9934189,0.000009325093,0.0001441626,0.0001540255,0.0002612581,0.0007500327,0.003282194,0.00004046748,0.001881586,0.00001093021],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9948058,0.0004799812,0.0003758383,0.00006730844,0.000009404838,0.000006420353,0.003752399,0.00001762847,0.0004852819],"genre_scores_gemma":[0.9953838,0.00016546,0.0005400513,0.00007873651,0.000006024145,0.00001065858,0.002799063,0.00001132417,0.001004957],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7553689,"threshold_uncertainty_score":0.4864143,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01579699508009509,"score_gpt":0.2744020033621531,"score_spread":0.258605008282058,"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."}}