Philipsson J. Genetic aspects of female fertility in dairy cattle. Livest Prod Sci. 1981;8:307–19.
Wall E, Brotherstone S, Kearney JF, Woolliams JA, Coffey MP. Impact of Nonadditive Genetic Effects in the Estimation of Breeding Values for Fertility and Correlated Traits. J Dairy Sci. 2005;88:376–85.
Berry DP, Wall E, Pryce JE. Genetics and genomics of reproductive performance in dairy and beef cattle. Animal. 2014;8:105–21.
VanRaden PM, Sanders AH, Tooker ME, Miller RH, Norman HD, Kuhn MT, et al. Development of a National Genetic Evaluation for Cow Fertility. J Dairy Sci. 2004;87:2285–92.
Miglior F, Muir BL, Van Doormaal BJ. Selection Indices in Holstein Cattle of Various Countries. J Dairy Sci. 2005;88:1255–63.
Royal MD, Flint APF, Woolliams JA. Genetic and Phenotypic Relationships Among Endocrine and Traditional Fertility Traits and Production Traits in Holstein-Friesian Dairy Cows. J Dairy Sci. 2002;85:958–67.
Veerkamp RF, Beerda B. Genetics and genomics to improve fertility in high producing dairy cows. Theriogenology. 2007;68(Supplement 1):S266–73.
Khatkar MS, Randhawa IAS, Raadsma HW. Meta-assembly of genomic regions and variants associated with female reproductive efficiency in cattle. Livest Sci. 2014;166:144–57.
Fuerst C, Sölkner J. Additive and Nonadditive Genetic Variances for Milk Yield, Fertility, and Lifetime Performance Traits of Dairy Cattle. J Dairy Sci. 1994;77:1114–25.
Hoeschele I. Additive and Nonadditive Genetic Variance in Female Fertility of Holsteins. J Dairy Sci. 1991;74:1743–52.
Druet T, Sölkner J, Groen AF, Gengler N. Additive and Dominance Genetic Variance of Fertility by Method R and Preconditioned Conjugate Gradient. J Dairy Sci. 2001;84:987. e981-987.e916.
Palucci V, Schaeffer LR, Miglior F, Osborne V. Non-additive genetic effects for fertility traits in Canadian Holstein cattle. Genet Sel Evol. 2007;39:181–93.
Vitezica ZG, Varona L, Legarra A. On the Additive and Dominant Variance and Covariance of Individuals Within the Genomic Selection Scope. Genetics. 2013;195:1223–30.
Misztal I, Varona L, Culbertson M, Bertrand JK, Mabry J, Lawlor TJ, et al. Studies on the value of incorporating the effect of dominance in genetic evaluations of dairy cattle, beef cattle and swine. Biotechnol Agron Soc Environ. 1998;2:227–33.
Sun C, VanRaden PM, Cole JB, O’Connell JR. Improvement of Prediction Ability for Genomic Selection of Dairy Cattle by Including Dominance Effects. PLoS ONE. 2014;9:e103934.
Ertl J, Legarra A, Vitezica Z, Varona L, Edel C, Emmerling R, et al. Genomic analysis of dominance effects on milk production and conformation traits in Fleckvieh cattle. Genet Sel Evol. 2014;46:40.
Cole JB, VanRaden PM, O’Connell JR, Van Tassell CP, Sonstegard TS, Schnabel RD, et al. Distribution and location of genetic effects for dairy traits. J Dairy Sci. 2009;92:2931–46.
Pryce JE, Bolormaa S, Chamberlain AJ, Bowman PJ, Savin K, Goddard ME, et al. A validated genome-wide association study in 2 dairy cattle breeds for milk production and fertility traits using variable length haplotypes. J Dairy Sci. 2010;93:3331–45.
Hayes BJ, Pryce J, Chamberlain AJ, Bowman PJ, Goddard ME. Genetic Architecture of Complex Traits and Accuracy of Genomic Prediction: Coat Colour, Milk-Fat Percentage, and Type in Holstein Cattle as Contrasting Model Traits. PLoS Genet. 2010;6:e1001139.
Wittenburg D, Melzer N, Reinsch N. Including non-additive genetic effects in Bayesian methods for the prediction of genetic values based on genome-wide markers. BMC Genet. 2011;12:74.
Koller D, Sahami M. Toward Optimal Feature Selection. In: Proceedings of the 13th International Conference on Machine Learning. 1996. p. 284–92.
Van Steen K. Travelling the world of gene–gene interactions. Brief Bioinform. 2011;13:1–19.
Gui J, Moore JH, Williams SM, Andrews P, Hillege HL, van der Harst P, et al. A Simple and Computationally Efficient Approach to Multifactor Dimensionality Reduction Analysis of Gene-Gene Interactions for Quantitative Traits. PLoS ONE. 2013;8:e66545.
Grisart B, Farnir F, Karim L, Cambisano N, Kim J-J, Kvasz A, et al. Genetic and functional confirmation of the causality of the DGAT1 K232A quantitative trait nucleotide in affecting milk yield and composition. Proc Natl Acad Sci USA. 2004;101:2398–403.
González-Recio O, Chang YM, Gianola D, Weigel KA. Comparison of models using different censoring scenarios for days open in Spanish Holstein cows. Anim Sci. 2006;82:233–9.
Berry DP, Bastiaansen JWM, Veerkamp RF, Wijga S, Wall E, Berglund B, et al. Genome-wide associations for fertility traits in Holstein–Friesian dairy cows using data from experimental research herds in four European countries. Animal. 2012;6:1206–15.
Riquet J, Coppieters W, Cambisano N, Arranz J-J, Berzi P, Davis SK, et al. Fine-mapping of quantitative trait loci by identity by descent in outbred populations: Application to milk production in dairy cattle. Proc Natl Acad Sci USA. 1999;96:9252–7.
Farnir F, Grisart B, Coppieters W, Riquet J, Berzi P, Cambisano N, et al. Simultaneous Mining of Linkage and Linkage Disequilibrium to Fine Map Quantitative Trait Loci in Outbred Half-Sib Pedigrees: Revisiting the Location of a Quantitative Trait Locus With Major Effect on Milk Production on Bovine Chromosome 14. Genetics. 2002;161:275–87.
Bagnato A, Schiavini F, Rossoni A, Maltecca C, Dolezal M, Medugorac I, et al. Quantitative Trait Loci Affecting Milk Yield and Protein Percentage in a Three-Country Brown Swiss Population. J Dairy Sci. 2008;91:767–83.
Thaller G, Krämer W, Winter A, Kaupe B, Erhardt G, Fries R. Effects of DGAT1 variants on milk production traits in German cattle breeds. J Anim Sci. 2003;81:1911–8.
Kühn C, Thaller G, Winter A, Bininda-Emonds ORP, Kaupe B, Erhardt G, et al. Evidence for Multiple Alleles at the DGAT1 Locus Better Explains a Quantitative Trait Locus With Major Effect on Milk Fat Content in Cattle. Genetics. 2004;167:1873–81.
Wang X, Wurmser C, Pausch H, Jung S, Reinhardt F, Tetens J, et al. Identification and Dissection of Four Major QTL Affecting Milk Fat Content in the German Holstein-Friesian Population. PLoS ONE. 2012;7:e40711.
Raven L-A, Cocks B, Hayes B. Multibreed genome wide association can improve precision of mapping causative variants underlying milk production in dairy cattle. BMC Genomics. 2014;15:62.
Gao Y, Lin X, Shi K, Yan Z, Wang Z. Bovine Mammary Gene Expression Profiling during the Onset of Lactation. PLoS ONE. 2013;8, e70393.
Blott S, Kim J-J, Moisio S, Schmidt-Küntzel A, Cornet A, Berzi P, et al. Molecular Dissection of a Quantitative Trait Locus: A Phenylalanine-to-Tyrosine Substitution in the Transmembrane Domain of the Bovine Growth Hormone Receptor Is Associated With a Major Effect on Milk Yield and Composition. Genetics. 2003;163:253–66.
Chamberlain AJ, Hayes BJ, Savin K, Bolormaa S, McPartlan HC, Bowman PJ, et al. Validation of single nucleotide polymorphisms associated with milk production traits in dairy cattle. J Dairy Sci. 2012;95:864–75.
Muncie SA, Cassady JP, Ashwell MS. Refinement of quantitative trait loci on bovine chromosome 18 affecting health and reproduction in US Holsteins. Anim Genet. 2006;37:273–5.
Brand B, Baes C, Mayer M, Reinsch N, Seidenspinner T, Thaller G, et al. Quantitative trait loci mapping of calving and conformation traits on Bos taurus autosome 18 in the German Holstein population. J Dairy Sci. 2010;93:1205–15.
Sahana G, Guldbrandtsen B, Lund MS. Genome-wide association study for calving traits in Danish and Swedish Holstein cattle. J Dairy Sci. 2011;94:479–86.
Brinkman-Van der Linden ECM, Hurtado-Ziola N, Hayakawa T, Wiggleton L, Benirschke K, Varki A. Human-specific expression of Siglec-6 in the placenta. Glycobiology. 2007;17:922–31.
Hoglund J, Sahana G, Guldbrandtsen B, Lund M. Validation of associations for female fertility traits in Nordic Holstein. Nordic Red and Jersey dairy cattle BMC Genet. 2014;15:8.
Flori L, Fritz S, Jaffrézic F, Boussaha M, Gut I, Heath S, et al. The Genome Response to Artificial Selection: A Case Study in Dairy Cattle. PLoS ONE. 2009;4:e6595.
Mach N, Blum Y, Bannink A, Causeur D, Houee-Bigot M, Lagarrigue S, et al. Pleiotropic effects of polymorphism of the gene diacylglycerol-O-transferase 1 (DGAT1) in the mammary gland tissue of dairy cows. J Dairy Sci. 2012;95:4989–5000.
Fernández-González R, de Dios HJ, López-Vidriero I, Benguría A, De Fonseca FR, Gutiérrez-Adán A. Analysis of gene transcription alterations at the blastocyst stage related to the long-term consequences of in vitro culture in mice. Reproduction. 2009;137:271–83.
Keating N, Quinlan LR. Small conductance potassium channels drive ATP-activated chloride secretion in the oviduct. Am J Physiol Cell Physiol. 2012;302:C100–9.
Bonnet A, Cabau C, Bouchez O, Sarry J, Marsaud N, Foissac S, et al. An overview of gene expression dynamics during early ovarian folliculogenesis: specificity of follicular compartments and bi-directional dialog. BMC Genomics. 2013;14:904.
Day LJ, Schaa KL, Ryckman KK, Cooper M, Dagle JM, Fong C-T, et al. Single-Nucleotide Polymorphisms in the KCNN3 Gene Associate With Preterm Birth. Reprod Sci. 2011;18:286–95.
Wei W-H, Hemani G, Haley CS. Detecting epistasis in human complex traits. Nat Rev Genet. 2014;15:722–33.
Visscher PM. Sizing up human height variation. Nat Genet. 2008;40:489–90.
de Roos APW, Hayes BJ, Spelman RJ, Goddard ME. Linkage Disequilibrium and Persistence of Phase in Holstein–Friesian, Jersey and Angus Cattle. Genetics. 2008;179:1503–12.
Boysen T-J, Heuer C, Tetens J, Reinhardt F, Thaller G. Novel Use of Derived Genotype Probabilities to Discover Significant Dominance Effects for Milk Production Traits in Dairy Cattle. Genetics. 2013;193:431–42.
Browning BL, Browning SR. A Unified Approach to Genotype Imputation and Haplotype-Phase Inference for Large Data Sets of Trios and Unrelated Individuals. Am J Hum Genet. 2009;84:210–23.
Erbe M, Hayes BJ, Matukumalli LK, Goswami S, Bowman PJ, Reich CM, et al. Improving accuracy of genomic predictions within and between dairy cattle breeds with imputed high-density single nucleotide polymorphism panels. J Dairy Sci. 2012;95:4114–29.
Zimin AV, Delcher AL, Florea L, Kelley DR, Schatz MC, Puiu D, et al. A whole-genome assembly of the domestic cow, Bos taurus. Genome Biol. 2009;10:R42.
Hayes B, Bowman P, Chamberlain A, Verbyla K, Goddard M. Accuracy of genomic breeding values in multi-breed dairy cattle populations. Genet Sel Evol. 2009;41:51.
Gilmour AR, Gogel B, Cullis B, Thompson R. ASReml User Guide Release 3.0. VSN International Ltd. UK: Hemel Hempstead, HP1, 1ES; 2009.
McKay S, Schnabel R, Murdoch B, Matukumalli L, Aerts J, Coppieters W, et al. Whole genome linkage disequilibrium maps in cattle. BMC Genet. 2007;8:74.
Bolormaa S, Pryce JE, Hayes BJ, Goddard ME. Multivariate analysis of a genome-wide association study in dairy cattle. J Dairy Sci. 2010;93:3818–33.
Turner SD. qqman: an R package for visualizing GWAS results using Q-Q and manhattan plots. biorXiv. 2014. doi:10.1101/005165.