{"id":"W4398749353","doi":"10.3168/jds.2023-24295","title":"Genome-wide association analyses reveal copy number variant regions associated with reproduction and disease traits in Canadian Holstein cattle","year":2024,"lang":"en","type":"article","venue":"Journal of Dairy Science","topic":"Genomic variations and chromosomal abnormalities","field":"Biochemistry, Genetics and Molecular Biology","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta; University of Guelph","funders":"Agriculture and Agri-Food Canada; Genome Alberta; Genome British Columbia; Genome Canada; Ontario Genomics; Canadian Dairy Commission; Dairy Farmers of Canada","keywords":"Biology; Genetics; Genome-wide association study; Reproduction; Copy-number variation; Genome; Disease; Holstein Cattle; Genetic association; Dairy cattle; Quantitative trait locus; Single-nucleotide polymorphism; Gene; Genotype; Medicine; Internal medicine","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008861558,0.00006733631,0.00009320484,0.000139611,0.0001218048,0.0001051916,0.0001073832,0.00004078312,0.000009057366],"category_scores_gemma":[0.0008686053,0.00005482795,0.00003178762,0.0003823708,0.00007621555,0.00004291992,0.00001773078,0.00009711698,0.000001387222],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002758739,"about_ca_system_score_gemma":0.001759037,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001832232,"about_ca_topic_score_gemma":0.009342934,"domain_scores_codex":[0.9991608,0.00004796035,0.0002041155,0.0001980834,0.0001879498,0.0002010465],"domain_scores_gemma":[0.9993573,0.00002492826,0.0001291439,0.00009334608,0.000166311,0.0002289851],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00007203655,0.0000859688,0.9392905,0.00003074142,0.0001555387,0.0001753887,0.001109004,0.002163683,0.05314982,0.0003204087,0.003224157,0.000222762],"study_design_scores_gemma":[0.0002240982,0.0001107943,0.9943281,0.00007044242,0.00005443191,0.0001004931,0.0002177706,0.00006362054,0.001904717,0.0002750528,0.002536235,0.0001142293],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9969084,0.0004360139,0.0001142733,0.002061128,0.0001251053,0.00005092468,0.00002833951,0.000002670515,0.0002731639],"genre_scores_gemma":[0.9986315,0.00005404996,0.0001783952,0.00009756648,0.0001138353,0.000001784593,0.00001162271,0.000005285214,0.000905929],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05503762,"threshold_uncertainty_score":0.5213577,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01393753611116102,"score_gpt":0.2600236026274116,"score_spread":0.2460860665162506,"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."}}