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Multivariate analysis identifying the main factors associated with cow productivity and welfare in tropical smallholder dairy farms in Vietnam.
Published in:
Tropical Animal Health & Production, 2022, v. 54, n. 5, p. 1, doi. 10.1007/s11250-022-03303-7
By:
- Bang, Nguyen N.;
- Chanh, Nguyen V.;
- Trach, Nguyen X.;
- Khang, Duong N.;
- Hayes, Ben J.;
- Gaughan, John B.;
- Lyons, Russell E.;
- McNeill, David M.
Publication type:
Article
Whole-genome comparison using complete genomes from Campylobacter fetus strains revealed single nucleotide polymorphisms on non-genomic islands for subspecies di.
Published in:
Frontiers in Microbiology, 2024, p. 1, doi. 10.3389/fmicb.2024.1452564
By:
- Chian Teng Ong;
- Blackall, Patrick. J.;
- Boe-Hansen, Gry B.;
- deWet, Sharon;
- Hayes, Ben J.;
- Indjein, Lea;
- Korolik, Victoria;
- Minchin, Catherine;
- Nguyen, Loan To;
- Nordin, Yusralimuna;
- Siddle, Hannah;
- Turni, Conny;
- Venus, Bronwyn;
- Westman, Mark E.;
- Zhetao Zhang;
- Tabor, Ala E.
Publication type:
Article
Multi-breed genomic evaluation for tropical beef cattle when no pedigree information is available.
Published in:
Genetics Selection Evolution, 2023, v. 55, n. 1, p. 1, doi. 10.1186/s12711-023-00847-6
By:
- Hayes, Ben J.;
- Copley, James;
- Dodd, Elsie;
- Ross, Elizabeth M.;
- Speight, Shannon;
- Fordyce, Geoffry
Publication type:
Article
Correction: In it for the long run: perspectives on exploiting long-read sequencing in livestock for population scale studies of structural variants.
Published in:
2023
By:
- Nguyen, Tuan V.;
- Vander Jagt, Christy J.;
- Wang, Jianghui;
- Daetwyler, Hans D.;
- Xiang, Ruidong;
- Goddard, Michael E.;
- Nguyen, Loan T.;
- Ross, Elizabeth M.;
- Hayes, Ben J.;
- Chamberlain, Amanda J.;
- MacLeod, Iona M.
Publication type:
Correction Notice
In it for the long run: perspectives on exploiting long-read sequencing in livestock for population scale studies of structural variants.
Published in:
Genetics Selection Evolution, 2023, v. 55, n. 1, p. 1, doi. 10.1186/s12711-023-00783-5
By:
- Nguyen, Tuan V.;
- Vander Jagt, Christy J.;
- Wang, Jianghui;
- Daetwyler, Hans D.;
- Xiang, Ruidong;
- Goddard, Michael E.;
- Nguyen, Loan T.;
- Ross, Elizabeth M.;
- Hayes, Ben J.;
- Chamberlain, Amanda J.;
- MacLeod, Iona M.
Publication type:
Article
Evolution of tissue and developmental specificity of transcription start sites in Bos taurus indicus.
Published in:
Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-02340-6
By:
- Forutan, Mehrnush;
- Ross, Elizabeth;
- Chamberlain, Amanda J.;
- Nguyen, Loan;
- Mason, Brett;
- Moore, Stephen;
- Garner, Josie B.;
- Xiang, Ruidong;
- Hayes, Ben J.
Publication type:
Article
Imputation of Missing Genotypes From Sparse to High Density Using Long-Range Phasing.
Published in:
Genetics, 2011, v. 189, n. 1, p. 317, doi. 10.1534/genetics.111.128082
By:
- Daetwyler, Hans D.;
- Wiggans, George R.;
- Hayes, Ben J.;
- Woolliams, John A.;
- Goddard, Mike E.
Publication type:
Article
Polymorphic Regions Affecting Human Height Also Control Stature in Cattle.
Published in:
Genetics, 2011, v. 187, n. 3, p. 981, doi. 10.1534/genetics.110.123943
By:
- Pryce, Jennie E.;
- Hayes, Ben J.;
- Bolormaa, Sunduimijid;
- Goddard, Michael E.
Publication type:
Article
Statistical Epistasis Is a Generic Feature of Gene Regulatory Networks.
Published in:
Genetics, 2007, v. 175, n. 1, p. 411, doi. 10.1534/genetics.106.058859
By:
- Gjuvsland, Arne B.;
- Hayes, Ben J.;
- Omholt, Stig W.;
- Carlborg, Örjan
Publication type:
Article
Adaptive sampling during sequencing reveals the origins of the bovine reproductive tract microbiome across reproductive stages and sexes.
Published in:
Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-19022-w
By:
- Ong, Chian Teng;
- Ross, Elizabeth M.;
- Boe-Hansen, Gry;
- Turni, Conny;
- Hayes, Ben J.;
- Fordyce, Geoffry;
- Tabor, Ala E.
Publication type:
Article
Boosting Genetic Gain in Allogamous Crops via Speed Breeding and Genomic Selection.
Published in:
Frontiers in Plant Science, 2019, v. 10, p. 1, doi. 10.3389/fpls.2019.01364
By:
- Jighly, Abdulqader;
- Lin, Zibei;
- Pembleton, Luke W.;
- Cogan, Noel O. I.;
- Spangenberg, German C.;
- Hayes, Ben J.;
- Daetwyler, Hans D.
Publication type:
Article
Limited evidence for genetic variation for resistance to the white spot syndrome virus in Indian populations of Penaeus monodon.
Published in:
Aquaculture Research, 2010, v. 41, n. 11, p. e872, doi. 10.1111/j.1365-2109.2010.02611.x
By:
- Hayes, Ben J.;
- Gitterle, Thomas;
- Gopikrishna, Gopalapillay;
- Gopal, Chavali;
- Krishna, Gopal;
- Jahageerdar, Shrivinas;
- Lozano, Carlos;
- Alavandi, Shankar;
- Paulpandi, Sivagnanam;
- Ravichandran, Pitchaiyappan;
- Rye, Morten
Publication type:
Article
Advancing artificial intelligence to help feed the world.
Published in:
2023
By:
- Hayes, Ben J.;
- Chen, Chensong;
- Powell, Owen;
- Dinglasan, Eric;
- Villiers, Kira;
- Kemper, Kathryn E.;
- Hickey, Lee T.
Publication type:
Letter
Breeding crops to feed 10 billion.
Published in:
Nature Biotechnology, 2019, v. 37, n. 7, p. 744, doi. 10.1038/s41587-019-0152-9
By:
- Hickey, Lee T.;
- N. Hafeez, Amber;
- Robinson, Hannah;
- Jackson, Scott A.;
- Leal-Bertioli, Soraya C. M.;
- Tester, Mark;
- Gao, Caixia;
- Godwin, Ian D.;
- Hayes, Ben J.;
- Wulff, Brande B. H.
Publication type:
Article
A linkage disequilibrium-based approach to position unmapped SNPs in crop species.
Published in:
BMC Genomics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12864-021-08116-w
By:
- Yadav, Seema;
- Ross, Elizabeth M.;
- Aitken, Karen S.;
- Hickey, Lee T.;
- Powell, Owen;
- Wei, Xianming;
- Voss-Fels, Kai P.;
- Hayes, Ben J.
Publication type:
Article
Genomic selection and genetic gain for nut yield in an Australian macadamia breeding population.
Published in:
BMC Genomics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12864-021-07694-z
By:
- O'Connor, Katie M.;
- Hayes, Ben J.;
- Hardner, Craig M.;
- Alam, Mobashwer;
- Henry, Robert J.;
- Topp, Bruce L.
Publication type:
Article
Prowler: a novel trimming algorithm for Oxford Nanopore sequence data.
Published in:
Bioinformatics, 2021, v. 37, n. 21, p. 3936, doi. 10.1093/bioinformatics/btab630
By:
- Lee, Simon;
- Nguyen, Loan T;
- Hayes, Ben J;
- Ross, Elizabeth M
Publication type:
Article
Genomic selection in livestock populations.
Published in:
Genetics Research, 2010, v. 92, n. 5/6, p. 413, doi. 10.1017/S0016672310000613
By:
- GODDARD, MICHAEL E.;
- HAYES, BEN J.;
- MEUWISSEN, THEO H. E.
Publication type:
Article
Accuracy of genomic selection using stochastic search variable selection in Australian Holstein Friesian dairy cattle.
Published in:
Genetics Research, 2009, v. 91, n. 5, p. 307, doi. 10.1017/S0016672309990243
By:
- Verbyla, Klara L.;
- Hayes, Ben J.;
- Bowman, Philip J.;
- Goddard, Michael E.
Publication type:
Article
LASSO with cross-validation for genomic selection.
Published in:
Genetics Research, 2009, v. 91, n. 6, p. 427, doi. 10.1017/S0016672309990334
By:
- Usai, M. Graziano;
- Goddard, Mike E.;
- Hayes, Ben J.
Publication type:
Article
Dissecting loci that underpin the genetic correlations between production, fertility, and urea traits in Australian Holstein cattle.
Published in:
Animal Genetics, 2024, v. 55, n. 4, p. 540, doi. 10.1111/age.13455
By:
- Olasege, Babatunde S.;
- van den Berg, Irene;
- Haile‐Mariam, Mekonnen;
- Ho, Phuong N.;
- Yin Oh, Zhen;
- Porto‐Neto, Laercio R.;
- Hayes, Ben J.;
- Pryce, Jennie E.;
- Fortes, Marina R. S.
Publication type:
Article
Linkage disequilibrium over short physical distances measured in sheep using a high-density SNP chip.
Published in:
Animal Genetics, 2014, v. 45, n. 5, p. 754, doi. 10.1111/age.12197
By:
- Kijas, James W.;
- Porto‐Neto, Laercio;
- Dominik, Sonja;
- Reverter, Antonio;
- Bunch, Rowan;
- McCulloch, Russell;
- Hayes, Ben J.;
- Brauning, Rudiger;
- McEwan, John
Publication type:
Article
Evolutionary computing to assemble standing genetic diversity and achieve long‐term genetic gain.
Published in:
Plant Genome, 2024, v. 17, n. 2, p. 1, doi. 10.1002/tpg2.20467
By:
- Villiers, Kira;
- Voss‐Fels, Kai P.;
- Dinglasan, Eric;
- Jacobs, Bertus;
- Hickey, Lee;
- Hayes, Ben J.
Publication type:
Article
Use of continuous genotypes for genomic prediction in sugarcane.
Published in:
Plant Genome, 2024, v. 17, n. 1, p. 1, doi. 10.1002/tpg2.20417
By:
- Yadav, Seema;
- Ross, Elizabeth M.;
- Wei, Xianming;
- Liu, Shouye;
- Nguyen, Loan To;
- Powell, Owen;
- Hickey, Lee T.;
- Deomano, Emily;
- Atkin, Felicity;
- Voss‐Fels, Kai P.;
- Hayes, Ben J.
Publication type:
Article
Genomic prediction with machine learning in sugarcane, a complex highly polyploid clonally propagated crop with substantial non‐additive variation for key traits.
Published in:
Plant Genome, 2023, v. 16, n. 4, p. 1, doi. 10.1002/tpg2.20390
By:
- Chen, Chensong;
- Powell, Owen;
- Dinglasan, Eric;
- Ross, Elizabeth M.;
- Yadav, Seema;
- Wei, Xianming;
- Atkin, Felicity;
- Deomano, Emily;
- Hayes, Ben J.
Publication type:
Article
Rare Variants in Transcript and Potential Regulatory Regions Explain a Small Percentage of the Missing Heritability of Complex Traits in Cattle.
Published in:
PLoS ONE, 2015, v. 10, n. 12, p. 1, doi. 10.1371/journal.pone.0143945
By:
- Gonzalez-Recio, Oscar;
- Daetwyler, Hans D.;
- MacLeod, Iona M.;
- Pryce, Jennie E.;
- Bowman, Phil J.;
- Hayes, Ben J.;
- Goddard, Michael E.
Publication type:
Article
A catalogue of novel bovine long noncoding RNA across 18 tissues.
Published in:
PLoS ONE, 2015, v. 10, n. 10, p. 1, doi. 10.1371/journal.pone.0141225
By:
- Koufariotis, Lambros T.;
- Chen, Yi-Ping Phoebe;
- Chamberlain, Amanda;
- Vander Jagt, Christy;
- Hayes, Ben J.
Publication type:
Article
Metagenomic Predictions: From Microbiome to Complex Health and Environmental Phenotypes in Humans and Cattle.
Published in:
PLoS ONE, 2013, v. 8, n. 9, p. 1, doi. 10.1371/journal.pone.0073056
By:
- Ross, Elizabeth M.;
- Moate, Peter J.;
- Marett, Leah C.;
- Cocks, Ben G.;
- Hayes, Ben J.
Publication type:
Article
Design of a Bovine Low-Density SNP Array Optimized for Imputation.
Published in:
PLoS ONE, 2012, v. 7, n. 3, p. 1, doi. 10.1371/journal.pone.0034130
By:
- Boichard, Didier;
- Hoyoung Chung;
- Dassonneville, Romain;
- David, Xavier;
- Eggen, André;
- Fritz, Sébastien;
- Gietzen, Kimberly J.;
- Hayes, Ben J.;
- Lawley, Cynthia T.;
- Sonstegard, Tad S.;
- Van Tassell, Curtis P.;
- Van Raden, Paul M.;
- Viaud-Martinez, Karine A.;
- Wiggans, George R.
Publication type:
Article
A Validated Genome Wide Association Study to Breed Cattle Adapted to an Environment Altered by Climate Change.
Published in:
PLoS ONE, 2009, v. 4, n. 8, p. 1, doi. 10.1371/journal.pone.0006676
By:
- Hayes, Ben J.;
- Bowman, Phil J.;
- Chamberlain, Amanda J.;
- Savin, Keith;
- van Tassell, Curt P.;
- Sonstegard, Tad S.;
- Goddard, Mike E.
Publication type:
Article
Epidemiological Risk Factors and Modelling Approaches for Risk Assessment of Lumpy Skin Disease Virus Introduction and Spread: Methodological Review and Implications for Risk-Based Surveillance in Australia.
Published in:
Transboundary & Emerging Diseases, 2024, v. 2024, p. 1, doi. 10.1155/2024/3090226
By:
- Owada, Kei;
- Mahony, Timothy J.;
- Ambrose, Rebecca K.;
- Hayes, Ben J.;
- Soares Magalhães, Ricardo J.
Publication type:
Article
A hybrid expectation maximisation and MCMC sampling algorithm to implement Bayesian mixture model based genomic prediction and QTL mapping.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-3082-7
By:
- Wang, Tingting;
- Chen, Yi-Ping Phoebe;
- Bowman, Phil J.;
- Goddard, Michael E.;
- Hayes, Ben J.
Publication type:
Article
Detailed phenotyping identifies genes with pleiotropic effects on body composition.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-2538-0
By:
- Bolormaa, Sunduimijid;
- Hayes, Ben J.;
- van der Werf, Julius H. J.;
- Pethick, David;
- Goddard, Michael E.;
- Daetwyler, Hans D.
Publication type:
Article
Using prior information from humans to prioritize genes and gene-associated variants for complex traits in livestock.
Published in:
PLoS Genetics, 2020, v. 16, n. 9, p. 1, doi. 10.1371/journal.pgen.1008780
By:
- Raymond, Biaty;
- Yengo, Loic;
- Costilla, Roy;
- Schrooten, Chris;
- Bouwman, Aniek C.;
- Hayes, Ben J.;
- Veerkamp, Roel F.;
- Visscher, Peter M.
Publication type:
Article
Author reply to A commentary on Pitfalls of predicting complex traits from SNPs.
Published in:
Nature Reviews Genetics, 2013, v. 14, n. 12, p. 894, doi. 10.1038/nrg3457-c2
By:
- Wray, Naomi R.;
- Yang, Jian;
- Hayes, Ben J.;
- Price, Alkes L.;
- Goddard, Michael E.;
- Visscher, Peter M.
Publication type:
Article
Pitfalls of predicting complex traits from SNPs.
Published in:
Nature Reviews Genetics, 2013, v. 14, n. 7, p. 507, doi. 10.1038/nrg3457
By:
- Wray, Naomi R.;
- Yang, Jian;
- Hayes, Ben J.;
- Price, Alkes L.;
- Goddard, Michael E.;
- Visscher, Peter M.
Publication type:
Article
Mapping genes for complex traits in domestic animals and their use in breeding programmes.
Published in:
2009
By:
- Goddard, Michael E.;
- Hayes, Ben J.
Publication type:
journal article
Multivariate Genomic Selection and Potential of Rapid Indirect Selection with Speed Breeding in Spring Wheat.
Published in:
Crop Science, 2019, v. 59, n. 5, p. 1945, doi. 10.2135/cropsci2018.12.0757
By:
- Watson, Amy;
- Hickey, Lee T.;
- Christopher, Jack;
- Rutkoski, Jessica;
- Poland, Jesse;
- Hayes, Ben J.
Publication type:
Article
Development of Genomic Prediction in Sorghum.
Published in:
Crop Science, 2018, p. 690, doi. 10.2135/cropsci2017.08.0469
By:
- Mace, Emma S.;
- Hunt, Colleen H.;
- van Eeuwijk, Fred A.;
- Hayes, Ben J.;
- Jordan, David R.
Publication type:
Article
Optimizing Resource Allocation in a Genomic Breeding Program for Perennial Ryegrass to Balance Genetic Gain, Cost, and Inbreeding.
Published in:
Crop Science, 2017, v. 57, n. 1, p. 243, doi. 10.2135/cropsci2016.07.0577
By:
- Zibei Lin;
- Junping Wang;
- Cogan, Noel O. I.;
- Pembleton, Luke W.;
- Badenhorst, Pieter;
- Forster, John W.;
- Spangenberg, German C.;
- Hayes, Ben J.;
- Daetwyler, Hans D.
Publication type:
Article
Models for Genome x Environment Interaction: Examples in Livestock.
Published in:
Crop Science, 2016, v. 56, n. 5, p. 2251, doi. 10.2135/cropsci2015.07.0451
By:
- Hayes, Ben J.;
- Daetwyler, Hans D.;
- Goddard, Mike E.
Publication type:
Article
Genetic parameter estimates for male and female fertility traits using genomic data to improve fertility in Australian beef cattle.
Published in:
Animal Production Science, 2021, v. 61, n. 17/18, p. 1863, doi. 10.1071/AN21097
By:
- Olasege, Babatunde S.;
- Tahir, Muhammad S.;
- Gouveia, Gabriela C.;
- Kour, Jagish;
- Porto-Neto, Laercio R.;
- Hayes, Ben J.;
- Fortes, Marina R. S.
Publication type:
Article
Breed-adjusted genomic relationship matrices as a method to account for population stratification in multibreed populations of tropically adapted beef heifers.
Published in:
Animal Production Science, 2021, v. 61, n. 17/18, p. 1788, doi. 10.1071/AN21057
By:
- Warburton, Christie L.;
- Costilla, Roy;
- Engle, Bailey N.;
- Corbet, Nicholas J.;
- Allen, Jack M.;
- Fordyce, Geoffry;
- McGowan, Michael R.;
- Burns, Brian M.;
- Hayes, Ben J.
Publication type:
Article
Towards a new phenotype for tick resistance in beef and dairy cattle: a review.
Published in:
Animal Production Science, 2019, v. 59, n. 8, p. 1401, doi. 10.1071/AN18487
By:
- Burrow, Heather M.;
- Mans, Ben J.;
- Cardoso, Fernando F.;
- Birkett, Michael A.;
- Kotze, Andrew C.;
- Hayes, Ben J.;
- Mapholi, Ntanganedzeni;
- Dzama, Kennedy;
- Marufu, Munyaradzi C.;
- Githaka, Naftaly W.;
- Djikeng, Appolinaire
Publication type:
Article
A practical future-scenarios selection tool to breed for heat tolerance in Australian dairy cattle.
Published in:
Animal Production Science, 2017, v. 57, n. 7, p. 1488, doi. 10.1071/AN16449
By:
- Nguyen, Thuy T. T.;
- Hayes, Ben J.;
- Pryce, Jennie E.
Publication type:
Article
Reducing the carbon footprint of Australian milk production by mitigation of enteric methane emissions.
Published in:
Animal Production Science, 2016, v. 56, n. 7, p. 1017, doi. 10.1071/AN15222
By:
- Moate, Peter J.;
- Deighton, Matthew H.;
- Williams, S. Richard O.;
- Pryce, Jennie E.;
- Hayes, Ben J.;
- Jacobs, Joe L.;
- Eckard, Richard J.;
- Hannah, Murray C.;
- Wales, William J.
Publication type:
Article
Use of molecular technologies for the advancement of animal breeding: genomic selection in dairy cattle populations in Australia, Ireland and New Zealand.
Published in:
Animal Production Science, 2013, v. 53, n. 9, p. 869, doi. 10.1071/AN12304
By:
- Spelman, Richard J.;
- Hayes, Ben J.;
- Berry, Donagh P.
Publication type:
Article
Genomic prediction using low-coverage portable Nanopore sequencing.
Published in:
PLoS ONE, 2021, v. 16, n. 12, p. 1, doi. 10.1371/journal.pone.0261274
By:
- Lamb, Harrison J.;
- Hayes, Ben J.;
- Randhawa, Imtiaz A. S.;
- Nguyen, Loan T.;
- Ross, Elizabeth M.
Publication type:
Article
Inferring Demography from Runs of Homozygosity in Whole-Genome Sequence, with Correction for Sequence Errors.
Published in:
Molecular Biology & Evolution, 2013, v. 30, n. 9, p. 2209, doi. 10.1093/molbev/mst125
By:
- MacLeod, Iona M.;
- Larkin, Denis M.;
- Lewin, Harris A.;
- Hayes, Ben J.;
- Goddard, Mike E.
Publication type:
Article
Accelerating Genetic Gain in Sugarcane Breeding Using Genomic Selection.
Published in:
Agronomy, 2020, v. 10, n. 4, p. 585, doi. 10.3390/agronomy10040585
By:
- Yadav, Seema;
- Jackson, Phillip;
- Wei, Xianming;
- Ross, Elizabeth M.;
- Aitken, Karen;
- Deomano, Emily;
- Atkin, Felicity;
- Hayes, Ben J.;
- Voss-Fels, Kai P.
Publication type:
Article

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