TY - STD TI - The 1000 Genomes Project Consortium. A map of human genome variation from population-scale sequencing. Nature. 2011;467:1061–73. ID - ref1 ER - TY - JOUR AU - Matasci, N. AU - Hung, L. H. AU - Yan, Z. AU - Carpenter, E. J. AU - Wickett, N. J. AU - Mirarab, S. PY - 2014 DA - 2014// TI - Data access for the 1000 plants (1KP) project JO - Gigascience VL - 3 UR - https://doi.org/10.1186/2047-217X-3-17 DO - 10.1186/2047-217X-3-17 ID - Matasci2014 ER - TY - JOUR AU - Daetwyler, H. D. AU - Capitan, A. AU - Pausch, H. AU - Stothard, P. AU - Binsbergen, R. AU - Brøndum, R. F. PY - 2014 DA - 2014// TI - Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle JO - Nat Genet VL - 46 UR - https://doi.org/10.1038/ng.3034 DO - 10.1038/ng.3034 ID - Daetwyler2014 ER - TY - JOUR AU - Howie, B. AU - Fuchsberger, C. AU - Stephens, M. AU - Marchini, J. AU - Abecasis, G. R. PY - 2012 DA - 2012// TI - Fast and accurate genotype imputation in genome-wide association studies through pre-phasing JO - Nat Genet VL - 44 UR - https://doi.org/10.1038/ng.2354 DO - 10.1038/ng.2354 ID - Howie2012 ER - TY - JOUR AU - Sargolzaei, M. AU - Chesnais, J. P. AU - Schenkel, F. S. PY - 2014 DA - 2014// TI - A new approach for efficient genotype imputation using information from relatives JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-478 DO - 10.1186/1471-2164-15-478 ID - Sargolzaei2014 ER - TY - JOUR AU - Berg, I. AU - Meuwissen, T. H. E. AU - MacLeod, I. M. AU - Goddard, M. E. PY - 2019 DA - 2019// TI - Predicting the effect of reference population on the accuracy of within, across, and multibreed genomic prediction JO - J Dairy Sci VL - 102 UR - https://doi.org/10.3168/jds.2018-15231 DO - 10.3168/jds.2018-15231 ID - Berg2019 ER - TY - JOUR AU - Meuwissen, T. H. E. AU - Goddard, M. E. PY - 2010 DA - 2010// TI - Accurate prediction of genetic values for complex traits by whole-genome resequencing JO - Genetics VL - 185 UR - https://doi.org/10.1534/genetics.110.116590 DO - 10.1534/genetics.110.116590 ID - Meuwissen2010 ER - TY - JOUR AU - Wang, T. AU - Chen, Y. P. AU - Goddard, M. E. AU - Meuwissen, T. H. E. AU - Kemper, K. E. AU - Hayes, B. E. PY - 2015 DA - 2015// TI - A computationally efficient algorithm for genomic prediction using a Bayesian model JO - Genet Sel Evol VL - 47 UR - https://doi.org/10.1186/s12711-014-0082-4 DO - 10.1186/s12711-014-0082-4 ID - Wang2015 ER - TY - JOUR AU - Zhou, X. AU - Carbonetto, P. AU - Stephens, M. PY - 2013 DA - 2013// TI - Polygenic modeling with Bayesian sparse linear mixed models JO - PLoS Genet VL - 9 UR - https://doi.org/10.1371/journal.pgen.1003264 DO - 10.1371/journal.pgen.1003264 ID - Zhou2013 ER - TY - JOUR AU - Calus, M. P. L. PY - 2014 DA - 2014// TI - Right-hand-side updating for fast computing of genomic breeding values JO - Genet Sel Evol VL - 46 UR - https://doi.org/10.1186/1297-9686-46-24 DO - 10.1186/1297-9686-46-24 ID - Calus2014 ER - TY - JOUR AU - Berg, I. AU - Bowman, P. J. AU - MacLeod, I. M. AU - Hayes, B. J. AU - Wang, T. AU - Bolormaa, S. PY - 2017 DA - 2017// TI - Multi-breed genomic prediction using Bayes R with sequence data and dropping variants with a small effect JO - Genet Sel Evol VL - 49 UR - https://doi.org/10.1186/s12711-017-0347-9 DO - 10.1186/s12711-017-0347-9 ID - Berg2017 ER - TY - JOUR AU - Matukumalli, L. K. AU - Lawley, C. T. AU - Schnabel, R. D. AU - Taylor, J. F. AU - Allan, M. F. AU - Heaton, M. P. PY - 2009 DA - 2009// TI - Development and characterization of a high-density SNP genotyping assay for cattle JO - PLoS One VL - 4 UR - https://doi.org/10.1371/journal.pone.0005350 DO - 10.1371/journal.pone.0005350 ID - Matukumalli2009 ER - TY - JOUR AU - Purcell, S. AU - Neale, B. AU - Todd-Brown, K. AU - Thomas, L. AU - Ferreira, M. A. AU - Bender, D. PY - 2007 DA - 2007// TI - PLINK: a tool set for whole-genome association and population-based linkage analyses JO - Am J Hum Genet VL - 81 UR - https://doi.org/10.1086/519795 DO - 10.1086/519795 ID - Purcell2007 ER - TY - JOUR AU - Loh, P. R. AU - Palamara, P. F. AU - Price, A. L. PY - 2016 DA - 2016// TI - Fast and accurate long-range phasing in a UK Biobank cohort JO - Nat Genet VL - 48 UR - https://doi.org/10.1038/ng.3571 DO - 10.1038/ng.3571 ID - Loh2016 ER - TY - JOUR AU - Habier, D. AU - Fernando, R. L. AU - Kizilkaya, K. AU - Garrick, D. J. PY - 2011 DA - 2011// TI - Extension of the Bayesian alphabet for genomic selection JO - BMC Bioinformatics VL - 12 UR - https://doi.org/10.1186/1471-2105-12-186 DO - 10.1186/1471-2105-12-186 ID - Habier2011 ER - TY - JOUR AU - VanRaden, P. M. PY - 2008 DA - 2008// TI - Efficient methods to compute genomic predictions JO - J Dairy Sci VL - 91 UR - https://doi.org/10.3168/jds.2007-0980 DO - 10.3168/jds.2007-0980 ID - VanRaden2008 ER - TY - JOUR AU - Wood, A. R. AU - Esko, T. AU - Yang, J. AU - Vedantam, S. AU - Pers, T. H. AU - Gustafsson, S. PY - 2014 DA - 2014// TI - Defining the role of common variation in the genomic and biological architecture of adult human height JO - Nat Genet VL - 46 UR - https://doi.org/10.1038/ng.3097 DO - 10.1038/ng.3097 ID - Wood2014 ER - TY - STD TI - Sorensen D, Gianola D. Likelihood, Bayesian, and MCMC methods in quantitative genetics. In: Statistics for biology and health. New York: Springer. 2002. ID - ref18 ER - TY - JOUR AU - Campos, G. AU - Gianola, D. AU - Rosa, G. J. M. AU - Weigel, K. A. AU - Crossa, J. PY - 2010 DA - 2010// TI - Semi-parametric genomic-enabled prediction of genetic values using reproducing kernel Hilbert spaces methods JO - Genet Res (Camb). VL - 92 UR - https://doi.org/10.1017/S0016672310000285 DO - 10.1017/S0016672310000285 ID - Campos2010 ER - TY - JOUR AU - Meuwissen, T. H. E. AU - Indahl, U. AU - Odegard, J. PY - 2017 DA - 2017// TI - Variable selection models for genomic selection using whole-genome sequence data and singular value decomposition JO - Genet Sel Evol VL - 49 UR - https://doi.org/10.1186/s12711-017-0369-3 DO - 10.1186/s12711-017-0369-3 ID - Meuwissen2017 ER - TY - BOOK AU - Falconer, D. S. AU - Mackay, T. F. C. PY - 1996 DA - 1996// TI - Introduction to quantitative genetics PB - Pearson Education Limited CY - Harlow ID - Falconer1996 ER - TY - BOOK AU - Gilks, W. R. AU - Richardson, S. AU - Spiegelhalter, D. J. PY - 1996 DA - 1996// TI - Markov chain monte Carlo in practice PB - Chapman and Hall CY - London ID - Gilks1996 ER - TY - JOUR AU - Kemper, K. E. AU - Bowman, P. J. AU - Hayes, B. J. AU - Visscher, P. M. AU - Goddard, M. E. PY - 2018 DA - 2018// TI - A multi-trait Bayesian method for mapping QTL and genomic prediction JO - Genet Sel Evol VL - 50 UR - https://doi.org/10.1186/s12711-018-0377-y DO - 10.1186/s12711-018-0377-y ID - Kemper2018 ER - TY - JOUR AU - Berg, I. AU - Xiang, R. AU - Jenko, J. AU - Pausch, H. AU - Boussaha, M. AU - Schrooten, C. PY - 2020 DA - 2020// TI - Meta-analysis for milk fat and protein percentage using imputed sequence variant genotypes in 94,321 cattle from eight cattle breeds JO - Genet Sel Evol VL - 52 UR - https://doi.org/10.1186/s12711-020-00556-4 DO - 10.1186/s12711-020-00556-4 ID - Berg2020 ER - TY - JOUR AU - Grisart, B. AU - Coppieters, W. AU - Farnir, F. AU - Karim, L. AU - Ford, C. AU - Berzi, P. PY - 2002 DA - 2002// TI - Positional candidate cloning of a QTL in dairy cattle: identification of a missense mutation in the bovine DGAT1 gene with major effect on milk yield and composition JO - Genome Res VL - 12 UR - https://doi.org/10.1101/gr.224202 DO - 10.1101/gr.224202 ID - Grisart2002 ER - TY - JOUR AU - Cole, J. B. AU - Wiggans, G. R. AU - Ma, L. AU - Sonstegard, T. S. AU - Lawlor, T. J. AU - Crooker, B. A. PY - 2011 DA - 2011// TI - Genome-wide association analysis of thirty-one production, health, reproduction and body conformation traits in contemporary US Holstein cows JO - BMC Genomics. VL - 12 UR - https://doi.org/10.1186/1471-2164-12-408 DO - 10.1186/1471-2164-12-408 ID - Cole2011 ER - TY - JOUR AU - Meredith, B. K. AU - Kearney, F. J. AU - Finlay, E. K. AU - Bradley, D. G. AU - Fahey, A. G. AU - Berry, D. P. PY - 2012 DA - 2012// TI - Genome-wide associations for milk production and somatic cell score in Holstein-Friesian cattle in Ireland JO - BMC Genet VL - 13 UR - https://doi.org/10.1186/1471-2156-13-21 DO - 10.1186/1471-2156-13-21 ID - Meredith2012 ER - TY - JOUR AU - Raven, L. A. AU - Cocks, B. G. AU - Hayes, B. J. PY - 2014 DA - 2014// TI - Multibreed genome wide association can improve precision of mapping causative variants underlying milk production in dairy cattle JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-62 DO - 10.1186/1471-2164-15-62 ID - Raven2014 ER - TY - JOUR AU - Erbe, M. AU - Hayes, B. J. AU - Matukumalli, L. K. AU - Goswami, S. AU - Bowman, P. J. AU - Reich, C. M. PY - 2012 DA - 2012// TI - Improving accuracy of genomic predictions within and between dairy cattle breeds with imputed high-density single nucleotide polymorphism panels JO - J Dairy Sci VL - 95 UR - https://doi.org/10.3168/jds.2011-5019 DO - 10.3168/jds.2011-5019 ID - Erbe2012 ER - TY - STD TI - Yang J, Ferreira T, Morris AP, Medland SE, Genetic Investigation of ANthropometric Traits (GIANT) Consortium, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium, et al. Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits. Nat Genet. 2012;44:369–75. ID - ref30 ER - TY - JOUR AU - Blott, S. AU - Kim, J. J. AU - Moisio, S. AU - Schmidt-Küntzel, A. AU - Cornet, A. AU - Berzi, P. PY - 2003 DA - 2003// TI - Molecular dissection of a quantitative trait locus: A phenylalanineto-tyrosine substitution in the transmembrane domain of the bovine growth hormone receptor is associated with a major effect on milk yield and composition JO - Genetics VL - 163 ID - Blott2003 ER - TY - JOUR AU - Luan, T. AU - Woolliams, J. A. AU - Lien, S. AU - Kent, M. AU - Svendsen, M. AU - Meuwissen, T. H. PY - 2009 DA - 2009// TI - The accuracy of Genomic Selection in Norwegian red cattle assessed by cross-validation JO - Genetics VL - 183 UR - https://doi.org/10.1534/genetics.109.107391 DO - 10.1534/genetics.109.107391 ID - Luan2009 ER - TY - JOUR AU - Iheshiulor, O. O. M. AU - Woolliams, J. A. AU - Svendsen, M. AU - Solberg, T. AU - Meuwissen, T. H. E. PY - 2017 DA - 2017// TI - Simultaneous fitting of genomic-BLUP and Bayes-C components in a genomic prediction model JO - Genet Sel Evol VL - 49 UR - https://doi.org/10.1186/s12711-017-0339-9 DO - 10.1186/s12711-017-0339-9 ID - Iheshiulor2017 ER - TY - JOUR AU - Zhu, L. AU - Zhang, Z. AU - Feng, F. AU - Schweitzer, P. AU - Phavaphutanon, J. AU - Vernier-Singer, M. PY - 2008 DA - 2008// TI - Single nucleotide polymorphisms refine QTL intervals for hip joint laxity in dogs JO - Anim Genet VL - 39 UR - https://doi.org/10.1111/j.1365-2052.2007.01691.x DO - 10.1111/j.1365-2052.2007.01691.x ID - Zhu2008 ER - TY - JOUR AU - Zhang, Q. AU - Sahana, G. AU - Su, G. AU - Guldbrandtsen, B. AU - Lund, M. S. AU - Calus, M. P. L. PY - 2018 DA - 2018// TI - Impact of rare and low-frequency sequence variants on reliability of genomic prediction in dairy cattle JO - Genet Sel Evol VL - 50 UR - https://doi.org/10.1186/s12711-018-0432-8 DO - 10.1186/s12711-018-0432-8 ID - Zhang2018 ER - TY - JOUR AU - Brøndum, R. F. AU - Su, G. AU - Janss, L. AU - Sahana, G. AU - Guldbrandtsen, B. AU - Boichard, D. PY - 2015 DA - 2015// TI - Quantitative trait loci markers derived from whole genome sequence data increases the reliability of genomic prediction JO - J Dairy Sci VL - 98 UR - https://doi.org/10.3168/jds.2014-9005 DO - 10.3168/jds.2014-9005 ID - Brøndum2015 ER -