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United States Department of Agriculture

Agricultural Research Service

Research Project: Improving Genetic Predictions in Dairy Animals Using Phenotypic and Genomic Information

Location: Animal Improvement Programs

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Increasing long-term response by selecting for favorable minor alleles - (Peer Reviewed Journal)
Sun, C., Van Raden, P.M. 2014. Increasing long-term response by selecting for favorable minor alleles. PLoS One. 9(2):e88510.
Mating programs including genomic relationships and dominance effects - (Peer Reviewed Journal)
Sun, C., Van Raden, P.M., O'Connell, J.R., Weigel, K.A., Gianola, D. 2013. Mating programs including genomic relationships and dominance effects. Journal of Dairy Science. 96(10):8014-8023.
Application of a posteriori granddaughter and modified granddaughter designs to determine Holstein haplotype effects - (Peer Reviewed Journal)
Weller, J.I., Van Raden, P.M., Wiggans, G.R. 2013. Application of a posteriori granddaughter and modified granddaughter designs to determine Holstein haplotype effects. Journal of Dairy Science. 96(8)5376-5387.
Single nucleotide polymorphisms in candidate genes associated with fertilizing ability of sperm and subsequent embryonic development in cattle - (Peer Reviewed Journal)
(19-Jul-13)
Genome-wide association mapping for identification of quantitative trait loci for rectal temperature during heat stress in Holstein cattle - (Peer Reviewed Journal)
Dikmen, S., Cole, J.B., Null, D.J., Hansen, P.J. 2013. Genome-wide association mapping for identification of quantitative trait loci for rectal temperature during heat stress in Holstein cattle. PLoS One. 8(7):e69202.
We are making inroads on health and fitness traits - (Popular Publication)
Parker Gaddis, K.L., Maltecca, C., Cole, J.B. 2013. We are making inroads on health and fitness traits. Hoard's Dairyman. 158(12):455.
Discovery of single nucleotide polymorphisms in candidate genes associated with fertility and production traits in Holstein cattle - (Peer Reviewed Journal)
Cochran, S.D., Cole, J.B., Null, D.J., Hansen, P.J. 2013. Discovery of single nucleotide polymorphisms in candidate genes associated with fertility and production traits in Holstein cattle. BioMed Central (BMC) Genetics. 14:49.
Open source tools to exploit DNA sequence data from livestock species - (Proceedings)
Bickhart, D.M., Hutchison, J.L., Xu, L., Song, J., Liu, G. 2013. Open source tools to exploit DNA sequence data from livestock species. BARC Poster Day. p. 9, abstract 4.
Mating programs including genomic relationships and dominance effects - (Proceedings)
Sun, C., Van Raden, P.M., O'Connell, J.R. 2013. Mating programs including genomic relationships and dominance effects. BARC Poster Day. p. 46, abstract 41.
Application of a posteriori granddaughter and modified granddaughter designs to determine Holstein haplotype effects - (Abstract Only)
Weller, J.I., Van Raden, P.M., Wiggans, G.R. 2013. Application of a posteriori granddaughter and modified granddaughter designs to determine Holstein haplotype effects. Journal of Dairy Science. 96(E-Suppl. 1):617 (abstr. 538).
Genomic evaluation and identification of haplotype affecting fertility for Ayrshire dairy cattle - (Abstract Only)
Cooper, T.A., Wiggans, G.R., Null, D.J., Hutchison, J.L. 2013. Genomic evaluation and identification of haplotype affecting fertility for Ayrshire dairy cattle. Journal of Dairy Science. 96(E-Suppl. 1):74 (abstr. T206).
Using 90,113 single nucleotide polymorphisms in genomic evaluation of dairy cattle - (Abstract Only)
Wiggans, G.R., Cooper, T.A., Van Raden, P.M. 2013. Using 90,113 single nucleotide polymorphisms in genomic evaluation of dairy cattle. Journal of Dairy Science. 96(E-Suppl. 1):617 (abstr. 539).
Tools to exploit sequence data to find new markers and disease loci in dairy cattle - (Abstract Only)
Bickhart, D.M., Harris, L., Liu, G. 2013. Tools to exploit sequence data to find new markers and disease loci in dairy cattle. Journal of Dairy Science. 96(E-Suppl. 1):624 (abstr. 557).
Optimal age at first calving for U.S. dairy cattle - (Abstract Only)
Cole, J.B., Hutchison, J.L., Bickhart, D.M., Null, D.J. 2013. Optimal age at first calving for U.S. dairy cattle. Journal of Dairy Science. 96(E-Suppl. 1):289–290 (abstr. W188).
Dissection of genomic correlation matrices using multivariate factor analysis in dairy and dual-purpose cattle breeds - (Abstract Only)
Macciotta, N.P., Dimauro, C., Vicario, D., Cole, J.B., Null, D.J. 2013. Dissection of genomic correlation matrices using multivariate factor analysis in dairy and dual-purpose cattle breeds. Journal of Dairy Science. 96(E-Suppl. 1):618 (abstr. 541).
Mating programs including genomic relationships - (Abstract Only)
Sun, C., Van Raden, P.M. 2013. Mating programs including genomic relationships. Journal of Dairy Science. 96(E-Suppl. 1):653 (abstr. 635).
Heritability estimates of performance and health traits of Holstein calves - (Abstract Only)
Mousa, M.S., Seykora, A.J., Chester-Jones, H., Ziegler, D.M., Cole, J.B. 2013. Heritability estimates of performance and health traits of Holstein calves. Journal of Dairy Science. 96(E-Suppl. 1):291 (abstr. W194).
Trends in noncompliance with milk quality standards for Dairy Herd Improvement herds in the United States - (Abstract Only)
Norman, H.D., Wright, J.R. 2013. Trends in noncompliance with milk quality standards for dairy herd improvement herds in the United States. Journal of Dairy Science. 96(E-Suppl. 1):603 (abstr. TH375).
Regression metamodels of an optimal genomic testing strategy in dairy cattle when selection intensity is low - (Abstract Only)
De Vries, A., Cole, J.B., Galligan, D.T. 2013. Regression metamodels of an optimal genomic testing strategy in dairy cattle when selection intensity is low. Journal of Dairy Science. 96(E-Suppl. 1):74 (abstr. T207).
Breeding for polled dairy cows versus dehorning: Preliminary cost assessments & discussion - (Abstract Only)
Widmar, N.O., Schutz, M.M., Cole, J.B. 2013. Breeding for polled dairy cows versus dehorning: Preliminary cost assessments & discussion. Journal of Dairy Science. 96(E-Suppl. 1):602 (abstr. TH373).
Analysis of health trait data from on-farm computer systems in the U.S. II: Comparison of genomic analyses including two-stage and single-step methods - (Abstract Only)
Parker Gaddis, K.L., Cole, J.B., Clay, J.S., Maltecca, C. 2013. Analysis of health trait data from on-farm computer systems in the U.S. II: Comparison of genomic analyses including two-stage and single-step methods. Journal of Dairy Science. 96(E-Suppl. 1):444 (abstr. 447).
Analysis of health trait data from on-farm computer systems in the U.S. I: Pedigree and genomic variance components estimation - (Abstract Only)
Parker Gaddis, K.L., Cole, J.B., Clay, J.H., Maltecca, C. 2013. Analysis of health trait data from on-farm computer systems in the U.S. I: Pedigree and genomic variance components estimation. Journal of Dairy Science. 96(E-Suppl. 1):443–444 (abstr. 446).
Systems Biology in Animal Breeding: Identifying relationships among markers, genes, and phenotypes - (Peer Reviewed Journal)
Cole, J.B., Lewis, R.M., Maltecca, C., Newman, S., Olson, K.M., Tait, R. 2013. Systems Biology in Animal Breeding: Identifying relationships among markers, genes, and phenotypes. Journal of Animal Science. 91(2):521-522.
Last Modified: 4/17/2014
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