Accuracy of breeding values of 'unrelated' individuals predicted by dense SNP genotyping

Genetics Selection Evolution

Volumn 41, Issue 1, 2009, Pages

  Meuwissen, Theo He ^a  

^a NORWEGIAN UNIVERSITY OF LIFE SCIENCES   (Norway)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER SIMULATION; DATA SET; GENOMICS; GENOTYPE; LIVESTOCK; PHENOTYPE; POPULATION SIZE; RISK ASSESSMENT; SELECTIVE BREEDING;

ANIMALIA;

EID: 77949826087     PISSN: 0999193X     EISSN: 12979686     Source Type: Journal    
DOI: 10.1186/1297-9686-41-35     Document Type: Article

References (23)

1. Genomic selection. ME Goddard BJ Hayes, J Anim Breed Genet 2007 124 323 330 18076469
2. Prediction of total genetic value using genome-wide dense marker maps. THE Meuwissen BJ Hayes ME Goddard, Genetics 2001 157 1819 1829 11290733
3. The impact of genetic relationship information on genome-assisted breeding values. D Habier RL Fernando JC Dekkers, Genetics 2007 177 2389 2397 18073436
4. Genome-wide association analysis identifies 20 loci that influence adult height. MN Weedon H Lango CM Lindgren C Wallace DM Evans M Mangino RM Freathy JR Perry S Stevens AS Hall NJ Samani B Shields I Prokopenko M Farrall A Dominiczak Diabetes Genetics Initiative; Wellcome Trust Case Control Consortium T Johnson S Bergmann JS Beckmann P Vollenweider DM Waterworth V Mooser CN Palmer AD Morris WH Ouwehand Cambridge GEM Consortium JH Zhao S Li RJ Loos I Barroso P Deloukas MS Sandhu E Wheeler N Soranzo M Inouye NJ Wareham M Caulfield PB Munroe AT Hattersley MI McCarthy TM Frayling, Nat Genet 2008 40 575 583 18391952 10.1038/ng.121
5. Genome partitioning of genetic variation for height from 11,214 sibling pairs. PM Visscher S Macgregor B Benyamin G Zhu S Gordon S Medland WG Hill JJ Hottenga G Willemsen DI Boomsma YZ Liu HW Deng GW Montgomery NG Martin, Am J Hum Genet 2007 81 1104 1110 17924350 10.1086/522934
6. Prediction of individual genetic risk to disease from genome wide association studies. NR Wray ME Goddard PM Visscher, Genome Res 2007 17 1520 1528 17785532 10.1101/gr.6665407
7. Generating samples under a Wright-Fischer neutral model of genetic variation. RR Hudson, Bioinformatics 2002 18 337 338 10.1093/bioinformatics/18. 2.337 11847089
8. On the genealogy of large populations. JFC Kingman, J Appl Probab 1982 19A 27 43 10.2307/3213548
9. Genomic selection using different marker types and densities. TR Solberg AK Sonesson JA Woolliams THE Meuwissen, J Anim Sci. 2008 86 10 209 216 10.2527/jas.2007-0010
10. Accuracy of predicting the genetic risk of disease using a genome-wide approach. HD Daetwyler B Villanueva JA Woolliams, PLoS ONE 2008 3 3395 18852893 10.1371/journal.pone.0003395
11. Genomic selection: prediction of accuracy and maximisation of long-term response. ME Goddard, Genetica 2008 136 2 245 57 10.1007/s10709-008-9308-0 18704696
12. Predicting unobserved phenotypes for complex traits from whole-genome SNP data. SH Lee JH van der Werf BJ Hayes ME Goddard PM Visscher, PLoS Genet 2008 4 10 1000231 18949033 10.1371/journal.pgen.1000231
13. D Falconer T Mackay, Introduction to quantitative genetics London, UK: Longman 1996
14. The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations. M Kimura, Genetics 1969 61 893 903 5364968
15. A combined linkage-physical map of the human genome. X Kong K Murphy T Raj C He PS White TC Matise, Am J Hum Genet 2004 75 1143 1148 15486828 10.1086/426405
16. Recent human effective population size estimated from linkage disequilibrium. A Tenesa P Navarro BJ Hayes DL Duffy GM Clarke ME Goddard PM Visscher, Genome Res 2007 17 520 526 17351134 10.1101/gr.6023607
17. BW Silverman, Density Estimation London, UK: Chapman and Hall 1986
18. CR Henderson, Applications of Linear Models in Animal Breeding Guelph, Canada: University of Guelph 1984
19. AR Gilmour BJ Gogel BR Cullis SJ Welham R Thompson, ASReml User Guide Release Hemel Hempstead, UK: VSN International Ltd 2002
20. Asymptotic rates of response from index selection. NR Wray WG Hill, Anim Prod 1989 49 217 227
21. Accuracy of genomic selection using different methods to define haplotypes. MP Calus TH Meuwissen AP de Roos RF Veerkamp, Genetics 2008 178 553 561 18202394 10.1534/genetics.107.080838
22. Linkage disequilibrium and homozygosity of chromosome segments in finite populations. JA Sved, Theor Popul Biol 1971 2 125 141 10.1016/0040-5809(71) 90011-6 5170716
23. Invited review: reliability of genomic predictions for North American Holstein bulls. PM VanRaden CP Van Tassell GR Wiggans TS Sonstegard RD Schnabel JF Taylor FS Schenkel, J Dairy Sci 2009 92 16 24 10.3168/jds.2008-1514 19109259