Ben J Hayes

Ben J Hayes

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Ben J Hayes

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Breeding crops to feed 10 billion.

Nat Biotechnol 2019 Jul 17;37(7):744-754. Epub 2019 Jun 17.

John Innes Centre, Norwich Research Park, Norwich, UK.

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http://dx.doi.org/10.1038/s41587-019-0152-9DOI Listing
July 2019

Unraveling genetic sensitivity of beef cattle to environmental variation under tropical conditions.

Genet Sel Evol 2019 Jun 20;51(1):29. Epub 2019 Jun 20.

Queensland Alliance for Agriculture and Food Innovation (QAAFI), Centre for Animal Science, University of Queensland, St. Lucia, QLD, 4072, Australia.

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http://dx.doi.org/10.1186/s12711-019-0470-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6585094PMC
June 2019

1000 Bull Genomes Project to Map Simple and Complex Genetic Traits in Cattle: Applications and Outcomes.

Annu Rev Anim Biosci 2019 Feb 3;7:89-102. Epub 2019 Dec 3.

Agriculture Victoria Research, AgriBio, Bundoora, Victoria 3083, Australia.

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https://www.annualreviews.org/doi/10.1146/annurev-animal-020
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http://dx.doi.org/10.1146/annurev-animal-020518-115024DOI Listing
February 2019

Multivariate genomic predictions for age at puberty in tropically adapted beef heifers.

J Anim Sci 2019 Jan;97(1):90-100

Queensland Alliance for Agriculture and Food Innovation, Centre for Animal Science, University of Queensland, St Lucia, QLD, Australia.

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http://dx.doi.org/10.1093/jas/sky428DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6313118PMC
January 2019

Variance explained by whole genome sequence variants in coding and regulatory genome annotations for six dairy traits.

BMC Genomics 2018 Apr 5;19(1):237. Epub 2018 Apr 5.

Queensland Alliance for Agriculture and Food Innovation, Centre for Animal Science, The University of Queensland, Building 80, 306 Carmody Road, Brisbane, St Lucia, QLD, 4072, Australia.

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http://dx.doi.org/10.1186/s12864-018-4617-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5885354PMC
April 2018

Insights into population genetics and evolution of polyploids and their ancestors.

Mol Ecol Resour 2018 Apr 26. Epub 2018 Apr 26.

Agriculture Victoria, AgriBio, Centre for AgriBiosciences, Bundoora, Vic., Australia.

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http://dx.doi.org/10.1111/1755-0998.12896DOI Listing
April 2018

Estimated allele substitution effects underlying genomic evaluation models depend on the scaling of allele counts.

Genet Sel Evol 2017 10 30;49(1):79. Epub 2017 Oct 30.

Animal Breeding and Genomics Centre, Wageningen Livestock Research, P.O. Box 338, 6700 AH, Wageningen, The Netherlands.

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http://dx.doi.org/10.1186/s12711-017-0355-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5662034PMC
October 2017

Multi-breed genomic prediction using Bayes R with sequence data and dropping variants with a small effect.

Genet Sel Evol 2017 09 21;49(1):70. Epub 2017 Sep 21.

Faculty of Veterinary and Agricultural Science, University of Melbourne, Parkville, VIC, Australia.

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http://dx.doi.org/10.1186/s12711-017-0347-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5609075PMC
September 2017

Application of a Bayesian non-linear model hybrid scheme to sequence data for genomic prediction and QTL mapping.

BMC Genomics 2017 Aug 15;18(1):618. Epub 2017 Aug 15.

Agriculture Victoria, AgriBio, Centre for AgriBioscience, Melbourne, VIC, 3083, Australia.

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http://dx.doi.org/10.1186/s12864-017-4030-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5558724PMC
August 2017

Exome sequence genotype imputation in globally diverse hexaploid wheat accessions.

Theor Appl Genet 2017 Jul 4;130(7):1393-1404. Epub 2017 Apr 4.

Agriculture Victoria, Agriculture Research Division, AgriBio, Centre for AgriBioscience, Bundoora, VIC, Australia.

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http://link.springer.com/10.1007/s00122-017-2895-3
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http://dx.doi.org/10.1007/s00122-017-2895-3DOI Listing
July 2017

Mitigation of inbreeding while preserving genetic gain in genomic breeding programs for outbred plants.

Theor Appl Genet 2017 May 31;130(5):969-980. Epub 2017 Mar 31.

Agriculture Victoria, Biosciences Research, AgriBio, Centre for AgriBioscience, La Trobe University, 5 Ring Road, Bundoora, Melbourne, VIC, 3083, Australia.

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http://link.springer.com/10.1007/s00122-017-2863-y
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http://dx.doi.org/10.1007/s00122-017-2863-yDOI Listing
May 2017

Erratum to: Detection and validation of structural variations in bovine whole-genome sequence data.

Genet Sel Evol 2017 03 3;49(1):31. Epub 2017 Mar 3.

AgriBio, Centre for AgriBioscience, Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, Bundoora, VIC, Australia.

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http://dx.doi.org/10.1186/s12711-017-0305-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5336645PMC
March 2017

Detection and validation of structural variations in bovine whole-genome sequence data.

Genet Sel Evol 2017 01 25;49(1):13. Epub 2017 Jan 25.

AgriBio, Centre for AgriBioscience, Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, Bundoora, VIC, Australia.

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http://dx.doi.org/10.1186/s12711-017-0286-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5267451PMC
January 2017

A hybrid expectation maximisation and MCMC sampling algorithm to implement Bayesian mixture model based genomic prediction and QTL mapping.

BMC Genomics 2016 Sep 21;17(1):744. Epub 2016 Sep 21.

Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, Bundoora, Melbourne, VIC, Australia.

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http://dx.doi.org/10.1186/s12864-016-3082-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5031345PMC
September 2016

A catalogue of novel bovine long noncoding RNA across 18 tissues.

PLoS One 2015 23;10(10):e0141225. Epub 2015 Oct 23.

College of Science, Health and Engineering, La Trobe University Bundoora, Melbourne, Victoria, Australia; Department of Environment and Primary Industries, AgriBio Bundoora, Melbourne, Victoria, Australia; Dairy Futures Co-operative Research Centre, Melbourne, Victoria, Australia.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0141225PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4619662PMC
June 2016

Detailed phenotyping identifies genes with pleiotropic effects on body composition.

BMC Genomics 2016 Mar 12;17:224. Epub 2016 Mar 12.

AgriBio, Centre for AgriBioscience, Department of Economic Development, Jobs, Transport and Resources, Bundoora, VIC, 3083, Australia.

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http://dx.doi.org/10.1186/s12864-016-2538-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4788919PMC
March 2016

Targeted imputation of sequence variants and gene expression profiling identifies twelve candidate genes associated with lactation volume, composition and calving interval in dairy cattle.

Mamm Genome 2016 Feb 27;27(1-2):81-97. Epub 2015 Nov 27.

Biosciences Research Division, Department of Economic Development, Jobs, Transport and Resources, 5 Ring Road, Bundoora, 3086, Australia.

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http://dx.doi.org/10.1007/s00335-015-9613-8DOI Listing
February 2016

Accounting for dominance to improve genomic evaluations of dairy cows for fertility and milk production traits.

Genet Sel Evol 2016 Feb 1;48. Epub 2016 Feb 1.

Biosciences Research Division, Department of Economic Development, Jobs, Transport and Resources, AgriBio, 5 Ring Road, Bundoora, VIC 3083, Australia.

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http://dx.doi.org/10.1186/s12711-016-0186-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4736671PMC
February 2016

Two-Variance-Component Model Improves Genetic Prediction in Family Datasets.

Am J Hum Genet 2015 Nov;97(5):677-90

Department of Epidemiology, Harvard T. H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Biostatistics, Harvard T. H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2015.10.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4667134PMC
November 2015

Selection on Optimal Haploid Value Increases Genetic Gain and Preserves More Genetic Diversity Relative to Genomic Selection.

Genetics 2015 Aug 19;200(4):1341-8. Epub 2015 Jun 19.

AgriBio, Centre for AgriBioscience, Department of Economic Development, Jobs, Transport and Resources (DEDJTR), Bundoora, Victoria 3083, Australia School of Applied Systems Biology, La Trobe University, Bundoora, Victoria 3086, Australia.

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http://dx.doi.org/10.1534/genetics.115.178038DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4574260PMC
August 2015

Validation of markers with non-additive effects on milk yield and fertility in Holstein and Jersey cows.

BMC Genet 2015 Jul 22;16:89. Epub 2015 Jul 22.

Biosciences Research Division, Department of Economic Development, Jobs, Transport and Resources, AgriBio, 5 Ring Road, Bundoora, VIC, 3083, Australia.

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http://www.biomedcentral.com/1471-2156/16/89
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http://dx.doi.org/10.1186/s12863-015-0241-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4509610PMC
July 2015

Impact of QTL properties on the accuracy of multi-breed genomic prediction.

Genet Sel Evol 2015 May 8;47:42. Epub 2015 May 8.

Department of Environment and Primary Industries, Agribio, La Trobe University, Bundoora, Victoria, 3083, Australia.

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http://dx.doi.org/10.1186/s12711-015-0124-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4424523PMC
May 2015

Simultaneous discovery, estimation and prediction analysis of complex traits using a bayesian mixture model.

PLoS Genet 2015 Apr 7;11(4):e1004969. Epub 2015 Apr 7.

Queensland Brain Institute, University of Queensland, Brisbane, Australia; University of Queensland Diamantina Institute, University of Queensland, Translational Research Institute (TRI), Brisbane, Australia.

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http://dx.doi.org/10.1371/journal.pgen.1004969DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4388571PMC
April 2015

Non-additive genetic variation in growth, carcass and fertility traits of beef cattle.

Genet Sel Evol 2015 Apr 2;47:26. Epub 2015 Apr 2.

Victorian Department of Economic Development, Jobs, Transport and Resources, Bundoora, VIC, 3083, Australia.

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http://dx.doi.org/10.1186/s12711-015-0114-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4382858PMC
April 2015

A computationally efficient algorithm for genomic prediction using a Bayesian model.

Genet Sel Evol 2015 Apr 30;47:34. Epub 2015 Apr 30.

Faculty of Science, Technology and Engineering, La Trobe University, Melbourne, VIC, 3086, Australia.

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http://dx.doi.org/10.1186/s12711-014-0082-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4415253PMC
April 2015

Characterizing homozygosity across United States, New Zealand and Australian Jersey cow and bull populations.

BMC Genomics 2015 Mar 15;16:187. Epub 2015 Mar 15.

Dairy Futures Cooperative Research Centre, 5 Ring Road, Bundoora, Victoria, 3083, Australia.

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http://www.biomedcentral.com/1471-2164/16/187
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http://dx.doi.org/10.1186/s12864-015-1352-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4460752PMC
March 2015

The effects of demography and long-term selection on the accuracy of genomic prediction with sequence data.

Genetics 2014 Dec 18;198(4):1671-84. Epub 2014 Sep 18.

Faculty of Veterinary and Agricultural Science, University of Melbourne, Melbourne, Victoria 3010, Australia BioSciences Research Division, Department of Environment and Primary Industries, Melbourne, Victoria 3086, Australia.

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http://dx.doi.org/10.1534/genetics.114.168344DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256779PMC
December 2014

Identification of genomic regions associated with inbreeding depression in Holstein and Jersey dairy cattle.

Genet Sel Evol 2014 Nov 18;46:71. Epub 2014 Nov 18.

Biosciences Research Division, Department of Environment and Primary Industries Victoria, 5 Ring Road, Bundoora 3083, Australia.

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http://dx.doi.org/10.1186/s12711-014-0071-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4234836PMC
November 2014

Linkage disequilibrium over short physical distances measured in sheep using a high-density SNP chip.

Anim Genet 2014 Oct 17;45(5):754-7. Epub 2014 Jul 17.

CSIRO Agriculture Flagship, St Lucia, Qld 4067, Australia.

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http://dx.doi.org/10.1111/age.12197DOI Listing
October 2014

Genomic prediction for rust resistance in diverse wheat landraces.

Theor Appl Genet 2014 Aug 26;127(8):1795-803. Epub 2014 Jun 26.

School of Applied Systems Biology, La Trobe University, Bundoora, VIC, 3083, Australia,

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http://link.springer.com/content/pdf/10.1007/s00122-014-2341
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http://link.springer.com/10.1007/s00122-014-2341-8
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http://dx.doi.org/10.1007/s00122-014-2341-8DOI Listing
August 2014

Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle.

Nat Genet 2014 Aug 13;46(8):858-65. Epub 2014 Jul 13.

1] Biosciences Research Division, Department of Environment and Primary Industries, Bundoora, Victoria, Australia. [2] School of Applied Systems Biology, La Trobe University, Bundoora, Victoria, Australia. [3] Dairy Futures Cooperative Research Centre, Bundoora, Victoria, Australia.

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http://dx.doi.org/10.1038/ng.3034DOI Listing
August 2014

Accuracy of imputation to whole-genome sequence data in Holstein Friesian cattle.

Genet Sel Evol 2014 Jul 15;46:41. Epub 2014 Jul 15.

Animal Breeding and Genomics Centre, Wageningen UR Livestock Research, P,O, Box 338, 6700 AH Wageningen, the Netherlands.

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http://dx.doi.org/10.1186/1297-9686-46-41DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4226983PMC
July 2014

Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle.

BMC Genomics 2014 Jun 6;15:436. Epub 2014 Jun 6.

Faculty of Science, Technology and Engineering, La Trobe University, Melbourne, Victoria 3086, Australia.

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http://dx.doi.org/10.1186/1471-2164-15-436DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4070550PMC
June 2014

Sensitivity of genomic selection to using different prior distributions.

BMC Proc 2010 31;4(Suppl 1 Proceedings of the 13th European workshop on QTL map):S5. Epub 2010 Mar 31.

Biosciences Research Division, Department of Primary Industries Victoria, 1 Park Drive, Bundoora 3083, Australia ; Melbourne School of Land and Environment, The University of Melbourne, Parkville 3010, Australia ; The Cooperative Research Centre for Beef Genetic Technologies, University of New England, Armidale, NSW 2351, Australia.

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http://dx.doi.org/10.1186/1753-6561-4-S1-S5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2857847PMC
May 2014

Metagenomic predictions: from microbiome to complex health and environmental phenotypes in humans and cattle.

PLoS One 2013 4;8(9):e73056. Epub 2013 Sep 4.

Biosciences Research Division, Department of Environment and Primary Industries, Bundoora, Victoria, Australia ; Dairy Futures Cooperative Research Centre, Bundoora, Victoria, Australia ; La Trobe University, Bundoora, Victoria, Australia.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0073056PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3762846PMC
April 2014

Genetic variants in mammary development, prolactin signalling and involution pathways explain considerable variation in bovine milk production and milk composition.

Genet Sel Evol 2014 Apr 29;46:29. Epub 2014 Apr 29.

Biosciences Research Division, Department of Primary Industries Victoria, AgriBio, 5 Ring Road, Bundoora 3086, Australia.

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http://dx.doi.org/10.1186/1297-9686-46-29DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4036308PMC
April 2014

A multi-trait, meta-analysis for detecting pleiotropic polymorphisms for stature, fatness and reproduction in beef cattle.

PLoS Genet 2014 Mar 27;10(3):e1004198. Epub 2014 Mar 27.

Victorian Department of Environment and Primary Industries, Bundoora, Victoria, Australia; School of Land and Environment, University of Melbourne, Parkville, Victoria, Australia.

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http://dx.doi.org/10.1371/journal.pgen.1004198DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3967938PMC
March 2014

An independent validation association study of carcass quality, shear force, intramuscular fat percentage and omega-3 polyunsaturated fatty acid content with gene markers in Australian lamb.

Meat Sci 2014 Feb 17;96(2 Pt B):1025-33. Epub 2013 Jul 17.

Cooperative Research Centre for Sheep Industry Innovation, CJ Hawkins Homestead Building, University of New England, Armidale, NSW, 2351, Australia; Biosciences Research Division, Department of Primary Industries, AgriBio Building, 5 Ring Road, Bundoora, Vic, 3083, Australia; Future Farming Systems Research Division, Department of Primary Industries, 915 Mt Napier Road, Hamilton, Vic, 3300, Australia. Electronic address:

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http://dx.doi.org/10.1016/j.meatsci.2013.07.008DOI Listing
February 2014

Genomic selection for recovery of original genetic background from hybrids of endangered and common breeds.

Evol Appl 2014 Feb 14;7(2):227-37. Epub 2013 Oct 14.

Department of Environment and Primary Industries, Biosciences Research Division Bundoora, Vic., Australia ; Cooperative Research Centre for Sheep Industry Innovation Armidale, NSW, Australia.

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http://dx.doi.org/10.1111/eva.12113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3927885PMC
February 2014

Multibreed genome wide association can improve precision of mapping causative variants underlying milk production in dairy cattle.

BMC Genomics 2014 Jan 24;15:62. Epub 2014 Jan 24.

Biosciences Research Division, Department of Primary Industries Victoria, 5 Ring Road, Bundoora 3086, Australia.

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http://dx.doi.org/10.1186/1471-2164-15-62DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3905911PMC
January 2014

Author reply to A commentary on Pitfalls of predicting complex traits from SNPs.

Nat Rev Genet 2013 Dec;14(12):894

The Queensland Brain Institute, The University of Queensland, QBI Building, St Lucia, Queensland 4071, Australia.

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http://dx.doi.org/10.1038/nrg3457-c2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266985PMC
December 2013

Metagenomics of rumen bacteriophage from thirteen lactating dairy cattle.

BMC Microbiol 2013 Nov 1;13:242. Epub 2013 Nov 1.

Department of Environment and Primary Industries, Bundoora, VIC 3086, Australia.

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http://dx.doi.org/10.1186/1471-2180-13-242DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3827882PMC
November 2013

Inferring demography from runs of homozygosity in whole-genome sequence, with correction for sequence errors.

Mol Biol Evol 2013 Sep 10;30(9):2209-23. Epub 2013 Jul 10.

Department of Agriculture and Food Systems, Melbourne School of Land and Environment, University of Melbourne, Victoria, Australia.

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http://dx.doi.org/10.1093/molbev/mst125DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3748359PMC
September 2013

Pitfalls of predicting complex traits from SNPs.

Nat Rev Genet 2013 07;14(7):507-15

Queensland Brain Institute, The University of Queensland, QBI Building, St Lucia, Queensland 4071, Australia.

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http://dx.doi.org/10.1038/nrg3457DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4096801PMC
July 2013

Genes of the RNASE5 pathway contain SNP associated with milk production traits in dairy cattle.

Genet Sel Evol 2013 Jul 16;45:25. Epub 2013 Jul 16.

Biosciences Research Division, Department of Primary Industries Victoria, 5 Ring Rd, Bundoora 3086, Australia.

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http://dx.doi.org/10.1186/1297-9686-45-25DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3733968PMC
July 2013

The future of livestock breeding: genomic selection for efficiency, reduced emissions intensity, and adaptation.

Trends Genet 2013 Apr 19;29(4):206-14. Epub 2012 Dec 19.

Biosciences Research Division, Department of Primary Industries, Bundoora, VIC 3083, Australia.

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http://dx.doi.org/10.1016/j.tig.2012.11.009DOI Listing
April 2013

Accuracy of pedigree and genomic predictions of carcass and novel meat quality traits in multi-breed sheep data assessed by cross-validation.

Genet Sel Evol 2012 Nov 12;44:33. Epub 2012 Nov 12.

Biosciences Research Division, Department of Primary Industries, Bundoora, Victoria 3083, Australia.

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http://dx.doi.org/10.1186/1297-9686-44-33DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3506471PMC
November 2012

Strategies and utility of imputed SNP genotypes for genomic analysis in dairy cattle.

BMC Genomics 2012 Oct 8;13:538. Epub 2012 Oct 8.

Reprogen - Animal Bioscience, Faculty of Veterinary Science, University of Sydney, 425 Werombi Road, Camden, NSW 2570, Australia.

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http://dx.doi.org/10.1186/1471-2164-13-538DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531262PMC
October 2012

High throughput whole rumen metagenome profiling using untargeted massively parallel sequencing.

BMC Genet 2012 Jul 2;13:53. Epub 2012 Jul 2.

Biosciences Research Division, Department of Primary Industries, Bundoora, VIC 3083, Australia.

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http://dx.doi.org/10.1186/1471-2156-13-53DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3464612PMC
July 2012

A dense SNP-based linkage map for Atlantic salmon (Salmo salar) reveals extended chromosome homeologies and striking differences in sex-specific recombination patterns.

BMC Genomics 2011 Dec 19;12:615. Epub 2011 Dec 19.

Centre for Integrative Genetics and Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, N-1432, Ås, Norway.

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http://dx.doi.org/10.1186/1471-2164-12-615DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3261913PMC
December 2011

Imputation of missing genotypes from sparse to high density using long-range phasing.

Genetics 2011 Sep 29;189(1):317-27. Epub 2011 Jul 29.

Biosciences Research Division, Department of Primary Industries, Bundoora 3083, Australia.

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http://dx.doi.org/10.1534/genetics.111.128082DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176129PMC
September 2011

Molecular characterization of a long range haplotype affecting protein yield and mastitis susceptibility in Norwegian Red cattle.

BMC Genet 2011 Aug 11;12:70. Epub 2011 Aug 11.

Centre for Integrative Genetics, Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, N-1432 Aas, Norway.

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http://dx.doi.org/10.1186/1471-2156-12-70DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3171720PMC
August 2011

Polymorphic regions affecting human height also control stature in cattle.

Genetics 2011 Mar 6;187(3):981-4. Epub 2011 Jan 6.

Biosciences Research Division, Department of Primary Industries, Bundoora, Victoria 3083, Australia.

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http://dx.doi.org/10.1534/genetics.110.123943DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3048786PMC
March 2011

Genotype calling and mapping of multisite variants using an Atlantic salmon iSelect SNP array.

Bioinformatics 2011 Feb 12;27(3):303-10. Epub 2010 Dec 12.

CIGENE/Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, N-1432 Aas, Norway.

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http://dx.doi.org/10.1093/bioinformatics/btq673DOI Listing
February 2011

Recent and historical recombination in the admixed Norwegian Red cattle breed.

BMC Genomics 2011 Jan 14;12:33. Epub 2011 Jan 14.

Department of Animal and Aquacultural Sciences, Centre for Integrative Genetics, Norwegian University of Life Sciences, N-1432 Aas, Norway.

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http://dx.doi.org/10.1186/1471-2164-12-33DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3030550PMC
January 2011

Genomic selection in livestock populations.

Genet Res (Camb) 2010 Dec;92(5-6):413-21

Department of Agriculture and Food Systems, University of Melbourne, Parkville 3010, Australia.

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http://dx.doi.org/10.1017/S0016672310000613DOI Listing
December 2010

Accuracy of direct genomic values in Holstein bulls and cows using subsets of SNP markers.

Genet Sel Evol 2010 Oct 16;42:37. Epub 2010 Oct 16.

Dairy Futures Cooperative Research Centre, Australia.

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http://dx.doi.org/10.1186/1297-9686-42-37DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2964565PMC
October 2010

Genetic architecture of complex traits and accuracy of genomic prediction: coat colour, milk-fat percentage, and type in Holstein cattle as contrasting model traits.

PLoS Genet 2010 Sep 23;6(9):e1001139. Epub 2010 Sep 23.

Biosciences Research Division, Department of Primary Industries Victoria, Melbourne, Victoria, Australia.

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http://dx.doi.org/10.1371/journal.pgen.1001139DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2944788PMC
September 2010

LASSO with cross-validation for genomic selection.

Genet Res (Camb) 2009 Dec;91(6):427-36

Settore Genetica e Biotecnologie, AGRIS-Sardegna, Olmedo 07040, Italy.

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http://dx.doi.org/10.1017/S0016672309990334DOI Listing
December 2009

Accuracy of genomic breeding values in multi-breed dairy cattle populations.

Genet Sel Evol 2009 Nov 24;41:51. Epub 2009 Nov 24.

Biosciences Research Division, Department of Primary Industries Victoria, Bundoora, Australia.

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http://dx.doi.org/10.1186/1297-9686-41-51DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2791750PMC
November 2009

Accuracy of genomic selection using stochastic search variable selection in Australian Holstein Friesian dairy cattle.

Genet Res (Camb) 2009 Oct;91(5):307-11

Biosciences Research Division, Department of Primary Industries Victoria, Bundoora, Australia.

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http://dx.doi.org/10.1017/S0016672309990243DOI Listing
October 2009

Mapping genes for complex traits in domestic animals and their use in breeding programmes.

Nat Rev Genet 2009 Jun;10(6):381-91

Department of Agriculture and Food Systems, University of Melbourne, Royal Parade, Parkville 3010, Australia.

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http://dx.doi.org/10.1038/nrg2575DOI Listing
June 2009

Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds.

Science 2009 Apr;324(5926):528-32

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http://dx.doi.org/10.1126/science.1167936DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2735092PMC
April 2009

Predicting unobserved phenotypes for complex traits from whole-genome SNP data.

PLoS Genet 2008 Oct 24;4(10):e1000231. Epub 2008 Oct 24.

School of Environmental and Rural Science, University of New England, Armidale, NSW, Australia.

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http://dx.doi.org/10.1371/journal.pgen.1000231DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2565502PMC
October 2008

SNP detection exploiting multiple sources of redundancy in large EST collections improves validation rates.

Bioinformatics 2007 Jul 26;23(13):1692-3. Epub 2007 Apr 26.

Animal Genetics and Genomics, Primary Industries Research Victoria, 475 Mickleham Rd, Attwood, Victoria, Australia 3049.

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http://dx.doi.org/10.1093/bioinformatics/btm154DOI Listing
July 2007

Nonlinear regulation enhances the phenotypic expression of trans-acting genetic polymorphisms.

BMC Syst Biol 2007 Jul 25;1:32. Epub 2007 Jul 25.

Centre for Integrative Genetics (CIGENE), Norwegian University of Life Sciences, As, Norway.

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http://dx.doi.org/10.1186/1752-0509-1-32DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1994684PMC
July 2007

Recent human effective population size estimated from linkage disequilibrium.

Genome Res 2007 Apr 9;17(4):520-6. Epub 2007 Mar 9.

Colon Cancer Genetics Group, University of Edinburgh, Western General Hospital, Edinburgh, UK.

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http://dx.doi.org/10.1101/gr.6023607DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1832099PMC
April 2007

Statistical epistasis is a generic feature of gene regulatory networks.

Genetics 2007 Jan 8;175(1):411-20. Epub 2006 Oct 8.

Centre for Integrative Genetics and Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, N-1432 Aas, Norway.

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http://dx.doi.org/10.1534/genetics.106.058859DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1774990PMC
January 2007

Novel multilocus measure of linkage disequilibrium to estimate past effective population size.

Genome Res 2003 Apr 12;13(4):635-43. Epub 2003 Mar 12.

Victorian Institute of Animal Science, Department of Natural Resources and Environment, Attwood, Victoria, 3049, Australia.

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http://dx.doi.org/10.1101/gr.387103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC430161PMC
April 2003