Distribution and location of genetic effects for dairy traits
John B. Cole,Paul M. VanRaden,Jeffrey R. O'Connell,C.P. Van Tassell,Tad S. Sonstegard,Robert D. Schnabel,Jeremy F. Taylor,G.R. Wiggans +7 more
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TLDR
A high-density scan using 38,416 single nucleotide polymorphism markers for 5,285 bulls confirmed 2 previously known major genes on Bos taurus autosomes (BTA) 6 and 14 but revealed few other large effects as discussed by the authors.About:
This article is published in Journal of Dairy Science.The article was published on 2009-06-01 and is currently open access. It has received 224 citations till now. The article focuses on the topics: Quantitative trait locus & Allele.read more
Citations
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Genomic characteristics of cattle copy number variations
Yali Hou,Yali Hou,George E. Liu,Derek M. Bickhart,Maria Francesca Cardone,Kai Wang,Eui-Soo Kim,Lakshmi K. Matukumalli,Lakshmi K. Matukumalli,Mario Ventura,Jiuzhou Song,Paul M. VanRaden,Tad S. Sonstegard,Curt P. Van Tassell +13 more
TL;DR: A comprehensive genomic analysis of cattle CNVs derived from SNP data is presented, which will be a valuable genomic variation resource combined with SNP detection assays, to help identify genes undergoing artificial selection in domesticated animals.
Journal ArticleDOI
A comparison of five methods to predict genomic breeding values of dairy bulls from genome-wide SNP markers
TL;DR: Four methods which use information from all SNP namely RR-BLUP, Bayes-R, PLSR and SVR generate similar accuracies of MBV prediction for genomic selection, and their use in the selection of immediate future generations in dairy cattle will be comparable.
Journal ArticleDOI
Case-control association mapping by proxy using family history of disease.
TL;DR: The results demonstrate the utility of association mapping without directly observing cases and anticipate that GWAX will prove useful in future genetic studies of complex traits in large population cohorts.
Journal ArticleDOI
Genomic imputation and evaluation using high-density Holstein genotypes.
Paul M. VanRaden,Daniel J. Null,Mehdi Sargolzaei,G.R. Wiggans,M.E. Tooker,John B. Cole,Tad S. Sonstegard,Erin E. Connor,M. S. Winters,J.B.C.H.M. van Kaam,Alessio Valentini,B J Van Doormaal,M.A. Faust,G.A. Doak +13 more
TL;DR: Evaluations were tested by using imputed actual genotypes and August 2008 phenotypes to predict deregressed evaluations of US bulls proven after August 2008, and the observed 0.4 percentage point average increase in reliability was less favorable than the 0.9 expected from simulation but was similar to actual gains from other HD studies.
Journal ArticleDOI
Genotyping-by-sequencing (GBS): a novel, efficient and cost-effective genotyping method for cattle using next-generation sequencing.
Marcos De Donato,Marcos De Donato,Sunday O. Peters,Sunday O. Peters,Sharon E. Mitchell,Tanveer Hussain,Tanveer Hussain,Ikhide G. Imumorin +7 more
TL;DR: GBS technique is novel, flexible, sufficiently high-throughput, and capable of providing acceptable marker density for genomic selection or genome-wide association studies at roughly one third of the cost of currently available genotyping technologies.
References
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Book
Introduction to quantitative genetics
TL;DR: The genetic constitution of a population: Hardy-Weinberg equilibrium and changes in gene frequency: migration mutation, changes of variance, and heritability are studied.
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Prediction of Total Genetic Value Using Genome-Wide Dense Marker Maps
TL;DR: It was concluded that selection on genetic values predicted from markers could substantially increase the rate of genetic gain in animals and plants, especially if combined with reproductive techniques to shorten the generation interval.
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Efficient Methods to Compute Genomic Predictions
TL;DR: Efficient methods for processing genomic data were developed to increase reliability of estimated breeding values and to estimate thousands of marker effects simultaneously, and a blend of first- and second-order Jacobi iteration using 2 separate relaxation factors converged well for allele frequencies and effects.
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Invited review: reliability of genomic predictions for North American Holstein bulls.
Paul M. VanRaden,C.P. Van Tassell,G.R. Wiggans,Tad S. Sonstegard,Robert D. Schnabel,Jeremy F. Taylor,Flavio S Schenkel +6 more
TL;DR: Genotypes for 38,416 markers and August 2003 genetic evaluations for 3,576 Holstein bulls born before 1999 were used to predict January 2008 daughter deviations and genomic prediction improves reliability by tracing the inheritance of genes even with small effects.