Results 1 to 10 of about 220,603 (207)

Predicting the accuracy of genomic predictions [PDF]

Genetics Selection Evolution, 2021
Abstract Background Mathematical models are needed for the design of breeding programs using genomic prediction. While deterministic models for selection on pedigree-based estimates of breeding values (PEBV) are available, these have not been fully developed for genomic selection, with a key missing component being the ...
Dekkers, Jack C. M., Su, Hailin, Cheng, Jian   +2 more
openaire   +5 more sources

Genomic Prediction for Twin Pregnancies [PDF]

Animals, 2021
Twinning is a multifactorial trait influenced by both genetic and environmental factors that can negatively impact animal welfare and economic sustainability on commercial dairy operations. To date, using genetic selection as a tool for reducing twinning rates on commercial dairies has been proposed, but not yet implemented.
Shaileen P. McGovern, Daniel J. Weigel, Brenda C. Fessenden, Dianelys Gonzalez-Peña, Natascha Vukasinovic, Anthony K. McNeel, Fernando A. Di Croce   +6 more
openaire   +4 more sources

Genomics-aided structure prediction [PDF]

Proceedings of the National Academy of Sciences, 2012
We introduce a theoretical framework that exploits the ever-increasing genomic sequence information for protein structure prediction. Structure-based models are modified to incorporate constraints by a large number of non-local contacts estimated from direct coupling analysis (DCA) of co-evolving genomic sequences.
Sulkowska, Joanna I., Morcos, Faruck, Weigt, Martin, Hwa, Terence, Onuchic, Jose N.   +4 more
openaire   +4 more sources

Genome position specific priors for genomic prediction [PDF]

BMC Genomics, 2012
The accuracy of genomic prediction is highly dependent on the size of the reference population. For small populations, including information from other populations could improve this accuracy. The usual strategy is to pool data from different populations; however, this has not proven as successful as hoped for with distantly related breeds.
R.F. Brøndum, Mogens Sandø Lund, Michael E. Goddard, Philip J Bowman, Benjamin J. Hayes, Benjamin J. Hayes, Guosheng Su   +6 more
openaire   +5 more sources

Genomic prediction using subsampling [PDF]

BMC Bioinformatics, 2017
Genome-wide assisted selection is a critical tool for the genetic improvement of plants and animals. Whole-genome regression models in Bayesian framework represent the main family of prediction methods. Fitting such models with a large number of observations involves a prohibitive computational burden. We propose the use of subsampling bootstrap Markov
Alencar Xavier, William M. Muir, Katy M. Rainey, Shizhong Xu   +3 more
openaire   +3 more sources

The Dimensionality of Genomic Information and Its Effect on Genomic Prediction [PDF]

Genetics, 2016
Abstract The genomic relationship matrix (GRM) can be inverted by the algorithm for proven and young (APY) based on recursion on a random subset of animals. While a regular inverse has a cubic cost, the cost of the APY inverse can be close to linear.
Pocrnic, Ivan, Lourenco, Daniela a L, Masuda, Yutaka, Legarra, Andres, Misztal, Ignacy   +4 more
openaire   +6 more sources

Interest of phenomic prediction as an alternative to genomic prediction in grapevine [PDF]

Plant Methods, 2021
Abstract Background Phenomic prediction has been defined as an alternative to genomic prediction by using spectra instead of molecular markers. A reflectance spectrum provides information on the biochemical composition within a tissue, itself being under genetic determinism. Thus, a relationship matrix built from spectra
Brault, Charlotte, Lazerges, Juliette, Doligez, Agnes, Thomas, Miguel, Ecarnot, Martin, Roumet, Pierre, Bertrand, Yves, Berger, Gilles, Pons, Thierry, François, Pierre, Le Cunff, Loïc, This, Patrice, Segura, Vincent   +12 more
openaire   +6 more sources

Promoter prediction in the human genome [PDF]

Bioinformatics, 2001
Abstract Computational prediction of eukaryotic polII promoters has been one of the most elusive problems despite considerable effort devoted to the study. Researchers have looked for various types of signals around the transcriptional start site (TSS), viz.
Sridhar Hannenhalli, Samuel Levy
openaire   +3 more sources

Prediction of operons in microbial genomes [PDF]

Nucleic Acids Research, 2001
Operon structure is an important organization feature of bacterial genomes. Many sets of genes occur in the same order on multiple genomes; these conserved gene groupings represent candidate operons. This study describes a computational method to estimate the likelihood that such conserved gene sets form operons.
Maria D. Ermolaeva, Owen White, Steven L. Salzberg   +2 more
openaire   +3 more sources

How predictable is genome evolution?

eLife, 2019
Similar patterns of genomic divergence have been observed in the evolution of plant species separated by oceans.
Matthew J Coathup, Owen G Osborne, Vincent Savolainen   +2 more
openaire   +6 more sources