@article{sebastiani2007bayesian, title={Bayesian estimates of linkage disequilibrium}, author={Sebastiani, Paola and Abad-Grau, Mar{\'\i}a M}, journal={BMC genetics}, volume={8}, number={1}, pages={36}, year={2007}, publisher={BioMed Central} } @article{hill1968linkage, title={Linkage disequilibrium in finite populations}, author={Hill, WG and Robertson, Alan}, journal={Theoretical and Applied Genetics}, volume={38}, number={6}, pages={226--231}, year={1968}, publisher={Springer} } @article{forsberg2017accounting, title={Accounting for genetic interactions improves modeling of individual quantitative trait phenotypes in yeast}, author={Forsberg, Simon KG and Bloom, Joshua S and Sadhu, Meru J and Kruglyak, Leonid and Carlborg, {\"O}rjan}, journal={Nature Genetics}, year={2017}, publisher={Nature Research} } @article{speed2015relatedness, title={Relatedness in the post-genomic era: is it still useful?}, author={Speed, Doug and Balding, David J}, journal={Nature Reviews Genetics}, volume={16}, number={1}, pages={33--44}, year={2015}, publisher={Nature Research} } @article{lehermeier2013sensitivity, title={Sensitivity to prior specification in Bayesian genome-based prediction models}, author={Lehermeier, Christina and Wimmer, Valentin and Albrecht, Theresa and Auinger, Hans-J{\"u}rgen and Gianola, Daniel and Schmid, Volker J and Sch{\"o}n, Chris-Carolin}, journal={Statistical applications in genetics and molecular biology}, volume={12}, number={3}, pages={375--391}, year={2013} } @article{goddard2009genomic, title={Genomic selection: prediction of accuracy and maximisation of long term response}, author={Goddard, Mike}, journal={Genetica}, volume={136}, number={2}, pages={245--257}, year={2009}, publisher={Springer} } @article{li2012overview, title={Overview of LASSO-related penalized regression methods for quantitative trait mapping and genomic selection}, author={Li, Zitong and Sillanp{\"a}{\"a}, Mikko J}, journal={Theoretical and Applied Genetics}, volume={125}, number={3}, pages={419--435}, year={2012}, publisher={Springer} } @article{habier2011extension, title={Extension of the Bayesian alphabet for genomic selection}, author={Habier, David and Fernando, Rohan L and Kizilkaya, Kadir and Garrick, Dorian J}, journal={BMC bioinformatics}, volume={12}, number={1}, pages={186}, year={2011}, publisher={BioMed Central} } @article{hill2011variation, title={Variation in actual relationship as a consequence of Mendelian sampling and linkage}, author={Hill, WG and Weir, Bruce Spencer}, journal={Genetics research}, volume={93}, number={01}, pages={47--64}, year={2011}, publisher={Cambridge Univ Press} } @article{yi2008bayesian, title={Bayesian LASSO for quantitative trait loci mapping}, author={Yi, Nengjun and Xu, Shizhong}, journal={Genetics}, volume={179}, number={2}, pages={1045--1055}, year={2008}, publisher={Genetics Soc America} } @article{hayes2001prediction, title={Prediction of total genetic value using genome-wide dense marker maps}, author={Hayes, BJ and Goddard, ME and others}, journal={Genetics}, volume={157}, number={4}, pages={1819--1829}, year={2001}, publisher={Genetics Soc America} } @article{heslot2014integrating, title={Integrating environmental covariates and crop modeling into the genomic selection framework to predict genotype by environment interactions}, author={Heslot, Nicolas and Akdemir, Deniz and Sorrells, Mark E and Jannink, Jean-Luc}, journal={Theoretical and applied genetics}, volume={127}, number={2}, pages={463--480}, year={2014}, publisher={Springer} } @article{gianola2016cross, title={Cross-validation without doing cross-validation in genome-enabled prediction}, author={Gianola, Daniel and Sch{\"o}n, Chris-Carolin}, journal={G3: Genes| Genomes| Genetics}, volume={6}, number={10}, pages={3107--3128}, year={2016}, publisher={Genetics Society of America} } @article{maki2014influence, title={Influence of gene interaction on complex trait variation with multilocus models}, author={M{\"a}ki-Tanila, Asko and Hill, William G}, journal={Genetics}, volume={198}, number={1}, pages={355--367}, year={2014}, publisher={Genetics Soc America} } @article{de2013prediction, title={Prediction of complex human traits using the genomic best linear unbiased predictor}, author={de los Campos, Gustavo and Vazquez, Ana I and Fernando, Rohan and Klimentidis, Yann C and Sorensen, Daniel}, journal={PLoS Genet}, volume={9}, number={7}, pages={e1003608}, year={2013}, publisher={Public Library of Science} } @article{yu2006unified, title={A unified mixed-model method for association mapping that accounts for multiple levels of relatedness}, author={Yu, Jianming and Pressoir, Gael and Briggs, William H and Bi, Irie Vroh and Yamasaki, Masanori and Doebley, John F and McMullen, Michael D and Gaut, Brandon S and Nielsen, Dahlia M and Holland, James B and others}, journal={Nature genetics}, volume={38}, number={2}, pages={203--208}, year={2006}, publisher={Nature Publishing Group} } @article{hori2016multi, title={Multi-task Gaussian process for imputing missing data in multi-trait and multi-environment trials}, author={Hori, Tomoaki and Montcho, David and Agbangla, Clement and Ebana, Kaworu and Futakuchi, Koichi and Iwata, Hiroyoshi}, journal={Theoretical and Applied Genetics}, volume={129}, number={11}, pages={2101--2115}, year={2016}, publisher={Springer} } @article{calus2008accuracy, title={Accuracy of genomic selection using different methods to define haplotypes}, author={Calus, MPL and De Roos, APW and Veerkamp, RF and others}, journal={Genetics}, volume={178}, number={1}, pages={553--561}, year={2008}, publisher={Genetics Soc America} } @article{habier2013genomic, title={Genomic BLUP decoded: a look into the black box of genomic prediction}, author={Habier, David and Fernando, Rohan L and Garrick, Dorian J}, journal={Genetics}, volume={194}, number={3}, pages={597--607}, year={2013}, publisher={Genetics Soc America} } @article{monnahan2015epistasis, title={Epistasis is a major determinant of the additive genetic variance in Mimulus guttatus}, author={Monnahan, Patrick J and Kelly, John K}, journal={PLoS Genet}, volume={11}, number={5}, pages={e1005201}, year={2015}, publisher={Public Library of Science} }