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Volumn 15, Issue , 2014, Pages

Multi-population genomic prediction using a multi-task Bayesian learning model

Author keywords

Bayesian model; Genomic prediction; Multi population; Multi task learning; Stochastic search variable selection

Indexed keywords

ANIMAL EXPERIMENT; ARTICLE; AYRSHIRE CATTLE; BAYESIAN LEARNING; GENE FREQUENCY; GENETIC CORRELATION; GENOMICS; GENOTYPE; HOLSTEIN CATTLE; MILK PRODUCTION; MULTI TASK BAYESIAN LEARNING MODEL; NONHUMAN; PHENOTYPE; QUANTITATIVE TRAIT LOCUS; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 84900842076     PISSN: None     EISSN: 14712156     Source Type: Journal    
DOI: 10.1186/1471-2156-15-53     Document Type: Article
Times cited : (18)

References (36)
  • 1
    • 0035045051 scopus 로고    scopus 로고
    • Prediction of total genetic value using genome-wide dense marker maps
    • 1461589, 11290733
    • Meuwissen TH, Hayes BJ, Goddard ME. Prediction of total genetic value using genome-wide dense marker maps. Genetics 2001, 157(4):1819-1829. 1461589, 11290733.
    • (2001) Genetics , vol.157 , Issue.4 , pp. 1819-1829
    • Meuwissen, T.H.1    Hayes, B.J.2    Goddard, M.E.3
  • 2
    • 67349287476 scopus 로고    scopus 로고
    • Genomic selection: prediction of accuracy and maximisation of long term response
    • 10.1007/s10709-008-9308-0, 18704696
    • Goddard M. Genomic selection: prediction of accuracy and maximisation of long term response. Genetica 2009, 136(2):245-257. 10.1007/s10709-008-9308-0, 18704696.
    • (2009) Genetica , vol.136 , Issue.2 , pp. 245-257
    • Goddard, M.1
  • 3
    • 52649102962 scopus 로고    scopus 로고
    • Technical note: prediction of breeding values using marker-derived relationship matrices
    • 10.2527/jas.2007-0733, 18407982
    • Hayes BJ, Goddard ME. Technical note: prediction of breeding values using marker-derived relationship matrices. J Anim Sci 2008, 86(9):2089-2092. 10.2527/jas.2007-0733, 18407982.
    • (2008) J Anim Sci , vol.86 , Issue.9 , pp. 2089-2092
    • Hayes, B.J.1    Goddard, M.E.2
  • 4
    • 61449110061 scopus 로고    scopus 로고
    • Invited review: genomic selection in dairy cattle: progress and challenges (vol 92, pg 433, 2009)
    • Hayes BJ, Bowman PJ, Chamberlain AJ, Goddard ME. Invited review: genomic selection in dairy cattle: progress and challenges (vol 92, pg 433, 2009). J Dairy Sci 2009, 92(3):1313-1313.
    • (2009) J Dairy Sci , vol.92 , Issue.3 , pp. 1313-1313
    • Hayes, B.J.1    Bowman, P.J.2    Chamberlain, A.J.3    Goddard, M.E.4
  • 6
    • 71549118527 scopus 로고    scopus 로고
    • Reliability of genomic predictions across multiple populations
    • 10.1534/genetics.109.104935, 2787438, 19822733
    • de Roos APW, Hayes BJ, Goddard ME. Reliability of genomic predictions across multiple populations. Genetics 2009, 183(4):1545-1553. 10.1534/genetics.109.104935, 2787438, 19822733.
    • (2009) Genetics , vol.183 , Issue.4 , pp. 1545-1553
    • de Roos, A.P.W.1    Hayes, B.J.2    Goddard, M.E.3
  • 7
    • 77949782994 scopus 로고    scopus 로고
    • Accuracy of genomic breeding values in multi-breed dairy cattle populations
    • 2791750, 19930712
    • Hayes B, Bowman P, Chamberlain A, Verbyla K, Goddard M. Accuracy of genomic breeding values in multi-breed dairy cattle populations. Genet Sel Evol 2009, 41(1):51. 2791750, 19930712.
    • (2009) Genet Sel Evol , vol.41 , Issue.1 , pp. 51
    • Hayes, B.1    Bowman, P.2    Chamberlain, A.3    Verbyla, K.4    Goddard, M.5
  • 9
    • 84862511727 scopus 로고    scopus 로고
    • Improving accuracy of genomic predictions within and between dairy cattle breeds with imputed high-density single nucleotide polymorphism panels
    • 10.3168/jds.2011-5019, 22720968
    • Erbe M, Hayes BJ, Matukumalli LK, Goswami S, Bowman PJ, Reich CM, Mason BA, Goddard ME. Improving accuracy of genomic predictions within and between dairy cattle breeds with imputed high-density single nucleotide polymorphism panels. J Dairy Sci 2012, 95(7):4114-4129. 10.3168/jds.2011-5019, 22720968.
    • (2012) J Dairy Sci , vol.95 , Issue.7 , pp. 4114-4129
    • Erbe, M.1    Hayes, B.J.2    Matukumalli, L.K.3    Goswami, S.4    Bowman, P.J.5    Reich, C.M.6    Mason, B.A.7    Goddard, M.E.8
  • 10
    • 84871928875 scopus 로고    scopus 로고
    • Genome position specific priors for genomic prediction
    • 10.1186/1471-2164-13-543, 3534589, 23050763
    • Brondum RF, Su GS, Lund MS, Bowman PJ, Goddard ME, Hayes BJ. Genome position specific priors for genomic prediction. BMC Genomics 2012, 13(1):543. 10.1186/1471-2164-13-543, 3534589, 23050763.
    • (2012) BMC Genomics , vol.13 , Issue.1 , pp. 543
    • Brondum, R.F.1    Su, G.S.2    Lund, M.S.3    Bowman, P.J.4    Goddard, M.E.5    Hayes, B.J.6
  • 11
    • 0031189914 scopus 로고    scopus 로고
    • Multitask learning
    • Caruana R. Multitask learning. Mach Learn 1997, 28(1):41-75.
    • (1997) Mach Learn , vol.28 , Issue.1 , pp. 41-75
    • Caruana, R.1
  • 15
    • 38849139819 scopus 로고    scopus 로고
    • Efficient peptide-mhc-i binding prediction for alleles with few known binders
    • 10.1093/bioinformatics/btm611, 18083718
    • Jacob L, Vert J-P. Efficient peptide-mhc-i binding prediction for alleles with few known binders. Bioinformatics 2008, 24(3):358-366. 10.1093/bioinformatics/btm611, 18083718.
    • (2008) Bioinformatics , vol.24 , Issue.3 , pp. 358-366
    • Jacob, L.1    Vert, J.-P.2
  • 16
    • 78650265128 scopus 로고    scopus 로고
    • Leveraging sequence classification by taxonomy-based multitask learning
    • Heidelberg: Springer Berlin
    • Widmer C, Leiva J, Altun Y, Rätsch G. Leveraging sequence classification by taxonomy-based multitask learning. Research in Computational Molecular Biology 2010, 522-534. Heidelberg: Springer Berlin.
    • (2010) Research in Computational Molecular Biology , pp. 522-534
    • Widmer, C.1    Leiva, J.2    Altun, Y.3    Rätsch, G.4
  • 17
    • 79951867561 scopus 로고    scopus 로고
    • Finding correlated biclusters from gene expression data
    • Yang W-H, Dai D-Q, Yan H. Finding correlated biclusters from gene expression data. Knowl Data Eng, IEEE T 2011, 23(4):568-584.
    • (2011) Knowl Data Eng, IEEE T , vol.23 , Issue.4 , pp. 568-584
    • Yang, W.-H.1    Dai, D.-Q.2    Yan, H.3
  • 18
    • 77954194620 scopus 로고    scopus 로고
    • Multi-population gwa mapping via multi-task regularized regression
    • 10.1093/bioinformatics/btq191, 2881376, 20529908
    • Puniyani K, Kim S, Xing EP. Multi-population gwa mapping via multi-task regularized regression. Bioinformatics 2010, 26(12):i208-i216. 10.1093/bioinformatics/btq191, 2881376, 20529908.
    • (2010) Bioinformatics , vol.26 , Issue.12
    • Puniyani, K.1    Kim, S.2    Xing, E.P.3
  • 19
    • 36849093104 scopus 로고    scopus 로고
    • Accuracy of genomic selection using different methods to define haplotypes
    • 10.1534/genetics.107.080838, 2206101, 18202394
    • Calus MPL, Meuwissen THE, de Roos APW, Veerkamp RF. Accuracy of genomic selection using different methods to define haplotypes. Genetics 2008, 178(1):553-561. 10.1534/genetics.107.080838, 2206101, 18202394.
    • (2008) Genetics , vol.178 , Issue.1 , pp. 553-561
    • Calus, M.P.L.1    Meuwissen, T.H.E.2    de Roos, A.P.W.3    Veerkamp, R.F.4
  • 20
    • 75649126894 scopus 로고    scopus 로고
    • Accuracy of genomic selection using stochastic search variable selection in australian holstein friesian dairy cattle
    • Verbyla KL, Hayes BJ, Bowman PJ, Goddard ME. Accuracy of genomic selection using stochastic search variable selection in australian holstein friesian dairy cattle. Genet Res 2009, 91(5):307-311.
    • (2009) Genet Res , vol.91 , Issue.5 , pp. 307-311
    • Verbyla, K.L.1    Hayes, B.J.2    Bowman, P.J.3    Goddard, M.E.4
  • 21
    • 79956199958 scopus 로고    scopus 로고
    • Extension of the bayesian alphabet for genomic selection
    • 3144464, 21605355
    • Habier D, Fernando RL, Kizilkaya K, Garrick DJ. Extension of the bayesian alphabet for genomic selection. BMC Bioinformatics 2011, 12(1):186. 3144464, 21605355.
    • (2011) BMC Bioinformatics , vol.12 , Issue.1 , pp. 186
    • Habier, D.1    Fernando, R.L.2    Kizilkaya, K.3    Garrick, D.J.4
  • 23
    • 84862527203 scopus 로고    scopus 로고
    • Fimpute - an efficient imputation algorithm for dairy cattle populations
    • Sargolzaei M, Chesnais JP, Schenkel FS. Fimpute - an efficient imputation algorithm for dairy cattle populations. J Dairy Sci 2011, 94(E-Suppl. 1):421.
    • (2011) J Dairy Sci , vol.94 , Issue.SUPPL. 1 , pp. 421
    • Sargolzaei, M.1    Chesnais, J.P.2    Schenkel, F.S.3
  • 25
    • 80053173294 scopus 로고    scopus 로고
    • Accuracy of genomic selection in simulated populations mimicking the extent of linkage disequilibrium in beef cattle
    • 10.1186/1471-2156-12-80, 3224120, 21933416
    • Brito FV, Neto JB, Sargolzaei M, Cobuci JA, Schenkel FS. Accuracy of genomic selection in simulated populations mimicking the extent of linkage disequilibrium in beef cattle. BMC Genet 2011, 12(1):80. 10.1186/1471-2156-12-80, 3224120, 21933416.
    • (2011) BMC Genet , vol.12 , Issue.1 , pp. 80
    • Brito, F.V.1    Neto, J.B.2    Sargolzaei, M.3    Cobuci, J.A.4    Schenkel, F.S.5
  • 26
    • 10744231897 scopus 로고    scopus 로고
    • Genetic and functional confirmation of the causality of the dgat1 k232a quantitative trait nucleotide in affecting milk yield and composition
    • 10.1073/pnas.0308518100, 356962, 14983021
    • Grisart B, Farnir F, Karim L, Cambisano N, Kim JJ, Kvasz A, Mni M, Simon P, Frere JM, Coppieters W, et al. Genetic and functional confirmation of the causality of the dgat1 k232a quantitative trait nucleotide in affecting milk yield and composition. Proc Natl Acad Sci U S A 2004, 101(8):2398-2403. 10.1073/pnas.0308518100, 356962, 14983021.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , Issue.8 , pp. 2398-2403
    • Grisart, B.1    Farnir, F.2    Karim, L.3    Cambisano, N.4    Kim, J.J.5    Kvasz, A.6    Mni, M.7    Simon, P.8    Frere, J.M.9    Coppieters, W.10
  • 27
    • 84859212226 scopus 로고    scopus 로고
    • Genome partitioning of genetic variation for milk production and composition traits in holstein cattle
    • 3268574, 22303315
    • Pimentel Eda C, Erbe M, Konig S, Simianer H. Genome partitioning of genetic variation for milk production and composition traits in holstein cattle. Front Genet 2011, 2:19. 3268574, 22303315.
    • (2011) Front Genet , vol.2 , pp. 19
    • Pimentel Eda, C.1    Erbe, M.2    Konig, S.3    Simianer, H.4
  • 28
    • 84866396804 scopus 로고    scopus 로고
    • Estimating additive and non-additive genetic variances and predicting genetic merits using genome-wide dense single nucleotide polymorphism markers
    • 10.1371/journal.pone.0045293, 3441703, 23028912
    • Su G, Christensen OF, Ostersen T, Henryon M, Lund MS. Estimating additive and non-additive genetic variances and predicting genetic merits using genome-wide dense single nucleotide polymorphism markers. PLoS One 2012, 7(9):e45293. 10.1371/journal.pone.0045293, 3441703, 23028912.
    • (2012) PLoS One , vol.7 , Issue.9
    • Su, G.1    Christensen, O.F.2    Ostersen, T.3    Henryon, M.4    Lund, M.S.5
  • 29
    • 78049360136 scopus 로고    scopus 로고
    • A note on mate allocation for dominance handling in genomic selection
    • 10.1186/1297-9686-42-33, 2928189, 20699012
    • Toro MA, Varona L. A note on mate allocation for dominance handling in genomic selection. Genet Sel Evol 2010, 42:33. 10.1186/1297-9686-42-33, 2928189, 20699012.
    • (2010) Genet Sel Evol , vol.42 , pp. 33
    • Toro, M.A.1    Varona, L.2
  • 30
    • 84888984101 scopus 로고    scopus 로고
    • On the additive and dominant variance and covariance of individuals within the genomic selection scope
    • 10.1534/genetics.113.155176, 24121775
    • Vitezica ZG, Varona L, Legarra A. On the additive and dominant variance and covariance of individuals within the genomic selection scope. Genetics 2013, 195(4):1223-1230. 10.1534/genetics.113.155176, 24121775.
    • (2013) Genetics , vol.195 , Issue.4 , pp. 1223-1230
    • Vitezica, Z.G.1    Varona, L.2    Legarra, A.3
  • 31
    • 38949168198 scopus 로고    scopus 로고
    • Technical note: computing strategies in genome-wide selection
    • 10.3168/jds.2007-0403, 18096959
    • Legarra A, Misztal I. Technical note: computing strategies in genome-wide selection. J Dairy Sci 2008, 91(1):360-366. 10.3168/jds.2007-0403, 18096959.
    • (2008) J Dairy Sci , vol.91 , Issue.1 , pp. 360-366
    • Legarra, A.1    Misztal, I.2
  • 32
    • 84926488537 scopus 로고    scopus 로고
    • Right-hand-side updating for fast computing of genomic breeding values
    • Calus MP. Right-hand-side updating for fast computing of genomic breeding values. Genet Sel Evol 2014, 46(1):24.
    • (2014) Genet Sel Evol , vol.46 , Issue.1 , pp. 24
    • Calus, M.P.1
  • 33
    • 77649277381 scopus 로고    scopus 로고
    • Em algorithm for bayesian estimation of genomic breeding values
    • 2845064, 20092655
    • Hayashi T, Iwata H. Em algorithm for bayesian estimation of genomic breeding values. BMC Genet 2010, 11:3. 2845064, 20092655.
    • (2010) BMC Genet , vol.11 , pp. 3
    • Hayashi, T.1    Iwata, H.2
  • 34
    • 70449706218 scopus 로고    scopus 로고
    • A fast algorithm for bayesb type of prediction of genome-wide estimates of genetic value
    • 10.1186/1297-9686-41-1, 2637031, 19284684
    • Meuwissen THE, Solberg TR, Shepherd R, Woolliams JA. A fast algorithm for bayesb type of prediction of genome-wide estimates of genetic value. Genet Sel Evol 2009, 41:1. 10.1186/1297-9686-41-1, 2637031, 19284684.
    • (2009) Genet Sel Evol , vol.41 , pp. 1
    • Meuwissen, T.H.E.1    Solberg, T.R.2    Shepherd, R.3    Woolliams, J.A.4
  • 35
    • 77958045362 scopus 로고    scopus 로고
    • Genomic selection and complex trait prediction using a fast em algorithm applied to genome-wide markers
    • 10.1186/1471-2105-11-529, 3098088, 20969788
    • Shepherd RK, Meuwissen TH, Woolliams JA. Genomic selection and complex trait prediction using a fast em algorithm applied to genome-wide markers. BMC Bioinformatics 2010, 11(1):529. 10.1186/1471-2105-11-529, 3098088, 20969788.
    • (2010) BMC Bioinformatics , vol.11 , Issue.1 , pp. 529
    • Shepherd, R.K.1    Meuwissen, T.H.2    Woolliams, J.A.3
  • 36
    • 84855469824 scopus 로고    scopus 로고
    • Estimation of quantitative trait locus effects with epistasis by variational bayes algorithms
    • 3249367, 22042575
    • Li ZT, Sillanpaa MJ. Estimation of quantitative trait locus effects with epistasis by variational bayes algorithms. Genetics 2012, 190(1):231-249. 3249367, 22042575.
    • (2012) Genetics , vol.190 , Issue.1 , pp. 231-249
    • Li, Z.T.1    Sillanpaa, M.J.2


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