{"id":"W3025462655","doi":"10.1038/s41598-020-64680-3","title":"High confidence copy number variants identified in Holstein dairy cattle from whole genome sequence and genotype array data","year":2020,"lang":"en","type":"article","venue":"Scientific Reports","topic":"Genomic variations and chromosomal abnormalities","field":"Biochemistry, Genetics and Molecular Biology","cited_by":29,"is_retracted":false,"has_abstract":true,"ca_institutions":"Agriculture and Agri-Food Canada; University of Alberta; University of Guelph","funders":"Ontario Ministry of Research and Innovation; Natural Sciences and Engineering Research Council of Canada; Ontario Ministry of Agriculture, Food and Rural Affairs; Agricultural Research Service; Genome Canada; Ontario Genomics; Ministry of Agriculture, Food and Rural Affairs; University of Guelph; Aarhus Universitet; Genome Alberta; U.S. Department of Agriculture","keywords":"Copy-number variation; Biology; Population; Confidence interval; Genotype; Genetics; Whole genome sequencing; Identification (biology); Genome; Computational biology; Gene; Medicine; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002669666,0.0002829519,0.0005634884,0.001360544,0.0003252469,0.0008687485,0.0003017468,0.0006208532,0.0008537133],"category_scores_gemma":[0.004422131,0.0002571675,0.0004841005,0.001106141,0.0004630275,0.0002944733,0.0004870066,0.0003817645,0.0002341198],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004163295,"about_ca_system_score_gemma":0.000248139,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002600124,"about_ca_topic_score_gemma":0.005062544,"domain_scores_codex":[0.9978991,0.0004157369,0.0001507307,0.0008536878,0.0005042003,0.0001766334],"domain_scores_gemma":[0.9975832,0.001494507,0.0003815565,0.0002758755,0.000170285,0.0000946016],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001357248,0.00009255817,0.5105454,0.000421969,0.0007107399,0.001091304,0.001235481,0.006600895,0.3976926,0.0004456809,0.0005299834,0.0792762],"study_design_scores_gemma":[0.00005071508,0.0002738658,0.9216481,0.00004743382,0.000430802,0.001931532,0.0002360503,0.012609,0.05906112,0.0005930364,0.003065155,0.00005330092],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9923801,0.0005394198,0.005657475,0.00002678257,0.000005454265,0.00001809214,0.001052985,0.00006132878,0.0002584023],"genre_scores_gemma":[0.980647,0.0003344771,0.01404134,0.00005056297,0.00001178675,0.00005826064,0.004388146,0.0000300901,0.0004384082],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002669666,"threshold_uncertainty_score":0.01411867,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03148006511797602,"score_gpt":0.2569435305180535,"score_spread":0.2254634654000774,"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."}}