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- Ivan Pocrnic, Daniela A L Lourenco, Yutaka Masuda, Andres Legarra, Ignacy Misztal
- Genetics
- 2016

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. Theory for the APY assumes that the optimal size of the subset (maximizing accuracy of genomic predictions) is due to… (More)

- Ivan Pocrnic, Daniela A L Lourenco, Yutaka Masuda, Ignacy Misztal
- Genetics Selection Evolution
- 2016

A genomic relationship matrix (GRM) can be inverted efficiently with the Algorithm for Proven and Young (APY) through recursion on a small number of core animals. The number of core animals is theoretically linked to effective population size (N e ). In a simulation study, the optimal number of core animals was equal to the number of largest eigenvalues of… (More)

- I Pocrnic, D A L Lourenco, H L Bradford, C Y Chen, I Misztal
- Journal of animal science
- 2017

In genomic evaluations, it is desirable to have low computing cost while retaining high accuracy of evaluation for young animals. When the population is large but only few animals have phenotypes, especially for low heritability traits, the convergence rate of BLUP or single-step genomic BLUP (ssGBLUP) can be very slow. This study investigates the effect of… (More)

- S Andonov, D A L Lourenco, +4 authors I Misztal
- Journal of dairy science
- 2017

Genetically linked small and large dairy cattle populations were simulated to test the effect of different sources of information from foreign populations on the accuracy of predicting breeding values for young animals in a small population. A large dairy cattle population (PL) with >20 generations was simulated, and a small subpopulation (PS) with 3… (More)

- Carolina A Garcia-Baccino, Andres Legarra, +4 authors Rodolfo J C Cantet
- Genetics Selection Evolution
- 2017

Metafounders are pseudo-individuals that encapsulate genetic heterozygosity and relationships within and across base pedigree populations, i.e. ancestral populations. This work addresses the estimation and usefulness of metafounder relationships in single-step genomic best linear unbiased prediction (ssGBLUP). We show that ancestral relationship parameters… (More)

- H L Bradford, I Pocrnić, B O Fragomeni, D A L Lourenco, I Misztal
- Journal of animal breeding and genetics…
- 2017

The Algorithm for Proven and Young (APY) enables the implementation of single-step genomic BLUP (ssGBLUP) in large, genotyped populations by separating genotyped animals into core and non-core subsets and creating a computationally efficient inverse for the genomic relationship matrix (G). As APY became the choice for large-scale genomic evaluations in… (More)

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