journal article Nov 01, 2011

Ridge Regression and Other Kernels for Genomic Selection with R Package rrBLUP

The Plant Genome Vol. 4 No. 3 pp. 250-255 · Wiley
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References
30
[1]
Bernardo "Prediction of maize single-cross performance using RFLPs and information from related hybrids" Crop Sci. (1994) 10.2135/cropsci1994.0011183x003400010003x
[2]
Bernardo "Molecular markers and selection for complex traits in plants: Learning from the last 20 years" Crop Sci. (2008) 10.2135/cropsci2008.03.0131
[3]
Bernardo (2010)
[4]
Bernardo "Number and fitness of selected individuals in marker-assisted and phenotypic recurrent selection" Crop Sci. (2006) 10.2135/cropsci2006.01-0057
[5]
Bernardo "Prospects for genomewide selection for quantitative traits in maize" Crop Sci. (2007) 10.2135/cropsci2006.11.0690
[6]
Bradbury "TASSEL: Software for association mapping of complex traits in diverse samples" Bioinformatics (2007) 10.1093/bioinformatics/btm308
[7]
Browning "Rapid and accurate haplotype phasing and missing-data inference for whole-genome association studies by use of localized haplotype clustering" Am. J. Hum. Genet. (2007) 10.1086/521987
[8]
Campos "Semi-parametric genomic-enabled prediction of genetic values using reproducing kernel Hilbert spaces methods" Genet. Res. Camb. (2010) 10.1017/s0016672310000285
[9]
Prediction of Genetic Values of Quantitative Traits in Plant Breeding Using Pedigree and Molecular Markers

José Crossa, Gustavo de los Campos, Paulino Pérez et al.

Genetics 2010 10.1534/genetics.110.118521
[10]
Dietrich "Overfitting and undercomputing in machine learning" ACM Comput. Surv. (1995) 10.1145/212094.212114
[11]
Gianola "Reproducing kernel Hilbert spaces regression methods for genomic assisted prediction of quantitative traits" Genetics (2008) 10.1534/genetics.107.084285
[12]
Habier "The impact of genetic relationship information on genome-assisted breeding values" Genetics (2007) 10.1534/genetics.107.081190
[13]
Hayes "Increased accuracy of artificial selection by using the realized relationship matrix" Genet. Res. Camb. (2009) 10.1017/s0016672308009981
[14]
Heffner "Genomic selection for crop improvement" Crop Sci. (2009) 10.2135/cropsci2008.08.0512
[15]
Heslot "Genomic selection in plant breeding: A comparison of models" Crop Sci. (2012) 10.2135/cropsci2011.06.0297
[16]
Hoerl "Ridge regression: Biased estimation for nonorthogonal problems" Technometrics (2000) 10.1080/00401706.2000.10485983
[17]
Jannink "Genomic selection in plant breeding: From theory to practice" Brief. Funct. Genomic (2010) 10.1093/bfgp/elq001
[18]
Kang "Efficient control of population structure in model organism association mapping" Genetics (2008) 10.1534/genetics.107.080101
[19]
Lande "Efficiency of marker-assisted selection in the improvement of quantitative traits" Genetics (1990) 10.1093/genetics/124.3.743
[20]
Meuwissen "Prediction of total genetic value using genome-wide dense marker maps" Genetics (2001) 10.1093/genetics/157.4.1819
[21]
Pérez "Genomic-enabled prediction based on molecular markers and pedigree using the Bayesian Linear Regression package in R" Plant Gen. (2010) 10.3835/plantgenome2010.04.0005
[22]
Piepho "Ridge regression and extensions for genomewide selection in maize" Crop Sci. (2009) 10.2135/cropsci2008.10.0595
[23]
Piepho "BLUP for phenotypic selection in plant breeding and variety testing" Euphytica (2008) 10.1007/s10681-007-9449-8
[24]
R Development Core Team (2011)
[25]
SAS Institute (1994)
[26]
Schölkopf (2002)
[27]
Searle (2006)
[28]
Whittaker "Marker-assisted selection using ridge regression" Genet. Res. Camb. (2000) 10.1017/s0016672399004462
[29]
Yu "A unified mixed-model method for association mapping that accounts for multiple levels of relatedness" Nat. Genet. (2006) 10.1038/ng1702
[30]
Zhong "Using quantitative trait loci results to discriminate among crosses on the basis of their progeny mean and variance" Genetics (2007) 10.1534/genetics.107.075358
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30
References
Details
Published
Nov 01, 2011
Vol/Issue
4(3)
Pages
250-255
License
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Cite This Article
Jeffrey B. Endelman (2011). Ridge Regression and Other Kernels for Genomic Selection with R Package rrBLUP. The Plant Genome, 4(3), 250-255. https://doi.org/10.3835/plantgenome2011.08.0024