Data from: A novel iterative mixed model to remap three complex orthopedic traits in dogs ...

• Main Authors: Huang, Meng, Hayward, Jessica J., Corey, Elizabeth, Garrison, Susan J., Wagner, Gabriela R., Krotscheck, Ursula, Hayashi, Kei, Schweitzer, Peter A., Lust, George, Boyko, Adam R., Todhunter, Rory J.
• Format: Dataset
• Language: English
• Published: Dryad 2018
• Subjects: FarmCPU; elbow dysplasia; Canis lupus familiaris; Genome-wide association study; hip dysplasia; Canis lupus
• Online Access: https://dx.doi.org/10.5061/dryad.8g7h7; https://datadryad.org/stash/dataset/doi:10.5061/dryad.8g7h7

Hip dysplasia (HD), elbow dysplasia (ED), and rupture of the cranial (anterior) cruciate ligament (RCCL) are the most common complex orthopedic traits of dogs and all result in debilitating osteoarthritis. Herein we reanalyzed previously reported data: the Norberg angle (a quantitative measure of HD) in 921 dogs, ED in 113 cases and 633 controls, and RCCL in 271 cases and 399 controls and their genotypes at ~185,000 single nucleotide polymorphisms. A novel fixed and random model with a circulating probability unification (FarmCPU) function, with marker-based principal components and a kinship matrix to correct for population stratification, was used. A Bonferroni correction at p<0.01 resulted in a pgenome of 6.96 ×10-8. Six loci were identified; three for HD and three for RCCL. An associated locus at CFA28:34,369,342 for HD was described in the same dogs using a conventional mixed model. No loci were identified for RCCL in the previous report but the two loci for ED in the previous report did not reach ... : RCCL .bedrccl.bed.gzRCCL .famrccl.fam.gzRCCL .bimrccl.bim.gzHD .bedHD.bed.gzHD .bimHD.bim.gzHD .famHD.fam.gzED .famED.fam.gzED .bedED.bed.gzED .bimED.bim.gz ...