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Linkage Disequilibrium Estimation in Low Coverage High-Throughput Sequencing Data.

Bilton TP, McEwan JC, Clarke SM, Brauning R, van Stijn TC, Rowe SJ, Dodds KG.

Genetics. 2018 Mar 27. pii: genetics.300831.2018. doi: 10.1534/genetics.118.300831. [Epub ahead of print]


Estimation of linkage disequilibrium and effective population size in New Zealand sheep using three different methods to create genetic maps.

Prieur V, Clarke SM, Brito LF, McEwan JC, Lee MA, Brauning R, Dodds KG, Auvray B.

BMC Genet. 2017 Jul 21;18(1):68. doi: 10.1186/s12863-017-0534-2.


An ovine hepatorenal fibrocystic model of a Meckel-like syndrome associated with dysmorphic primary cilia and TMEM67 mutations.

Stayner C, Poole CA, McGlashan SR, Pilanthananond M, Brauning R, Markie D, Lett B, Slobbe L, Chae A, Johnstone AC, Jensen CG, McEwan JC, Dittmer K, Parker K, Wiles A, Blackburne W, Leichter A, Leask M, Pinnapureddy A, Jennings M, Horsfield JA, Walker RJ, Eccles MR.

Sci Rep. 2017 May 9;7(1):1601. doi: 10.1038/s41598-017-01519-4.


Characterization of an X-chromosomal non-mosaic monosomy (59, X0) dairy heifer detected using routinely available single nucleotide polymorphism genotype data.

Berry DP, Wolfe A, O'Donovan J, Byrne N, Sayers RG, Dodds KG, McEwan JC, O'Connor RE, McClure M, Purfield DC.

J Anim Sci. 2017 Mar;95(3):1042-1049. doi: 10.2527/jas.2016.1279.


Genetic diversity of a New Zealand multi-breed sheep population and composite breeds' history revealed by a high-density SNP chip.

Brito LF, McEwan JC, Miller SP, Pickering NK, Bain WE, Dodds KG, Schenkel FS, Clarke SM.

BMC Genet. 2017 Mar 14;18(1):25. doi: 10.1186/s12863-017-0492-8.


Prediction of genomic breeding values for growth, carcass and meat quality traits in a multi-breed sheep population using a HD SNP chip.

Brito LF, Clarke SM, McEwan JC, Miller SP, Pickering NK, Bain WE, Dodds KG, Sargolzaei M, Schenkel FS.

BMC Genet. 2017 Jan 26;18(1):7. doi: 10.1186/s12863-017-0476-8.


Gene network analysis identifies rumen epithelial cell proliferation, differentiation and metabolic pathways perturbed by diet and correlated with methane production.

Xiang R, McNally J, Rowe S, Jonker A, Pinares-Patino CS, Oddy VH, Vercoe PE, McEwan JC, Dalrymple BP.

Sci Rep. 2016 Dec 14;6:39022. doi: 10.1038/srep39022.


Assessing accuracy of imputation using different SNP panel densities in a multi-breed sheep population.

Ventura RV, Miller SP, Dodds KG, Auvray B, Lee M, Bixley M, Clarke SM, McEwan JC.

Genet Sel Evol. 2016 Sep 23;48(1):71.


Copy number variants in the sheep genome detected using multiple approaches.

Jenkins GM, Goddard ME, Black MA, Brauning R, Auvray B, Dodds KG, Kijas JW, Cockett N, McEwan JC.

BMC Genomics. 2016 Jun 8;17:441. doi: 10.1186/s12864-016-2754-7.


Natural variation in methane emission of sheep fed on a lucerne pellet diet is unrelated to rumen ciliate community type.

Kittelmann S, Pinares-Patiño CS, Seedorf H, Kirk MR, McEwan JC, Janssen PH.

Microbiology. 2016 Mar;162(3):459-65. doi: 10.1099/mic.0.000245. Epub 2016 Jan 26.


Construction of relatedness matrices using genotyping-by-sequencing data.

Dodds KG, McEwan JC, Brauning R, Anderson RM, van Stijn TC, Kristjánsson T, Clarke SM.

BMC Genomics. 2015 Dec 9;16:1047. doi: 10.1186/s12864-015-2252-3.


Ovine rumen papillae biopsy via oral endoscopy; a rapid and repeatable method for serial sampling.

McRae KM, Schultz M, Mackintosh CG, Shackell GH, Martinez MF, Knowler KJ, Williams M, Ho C, Elmes SN, McEwan JC.

N Z Vet J. 2016 May;64(3):174-8. doi: 10.1080/00480169.2015.1121845. Epub 2016 Jan 14.


Genomic prediction and genome-wide association study for dagginess and host internal parasite resistance in New Zealand sheep.

Pickering NK, Auvray B, Dodds KG, McEwan JC.

BMC Genomics. 2015 Nov 17;16:958. doi: 10.1186/s12864-015-2148-2.


Anaesthesia-associated hypersensitivity reactions: seven years' data from a British bi-specialty clinic.

Low AE, McEwan JC, Karanam S, North J, Kong KL.

Anaesthesia. 2016 Jan;71(1):76-84. doi: 10.1111/anae.13273. Epub 2015 Nov 13.


Gremlin1 induces anterior-posterior limb bifurcations in developing Xenopus limbs but does not enhance limb regeneration.

Wang YH, Keenan SR, Lynn J, McEwan JC, Beck CW.

Mech Dev. 2015 Nov;138 Pt 3:256-67. doi: 10.1016/j.mod.2015.10.003. Epub 2015 Oct 23.


Genetic analysis and genomic selection of stayability and productive life in New Zealand ewes.

Lee MA, Cullen NG, Newman SA, Dodds KG, McEwan JC, Shackell GH.

J Anim Sci. 2015 Jul;93(7):3268-77. doi: 10.2527/jas.2014-8259.


Animal board invited review: genetic possibilities to reduce enteric methane emissions from ruminants.

Pickering NK, Oddy VH, Basarab J, Cammack K, Hayes B, Hegarty RS, Lassen J, McEwan JC, Miller S, Pinares-Patiño CS, de Haas Y.

Animal. 2015 Sep;9(9):1431-40. doi: 10.1017/S1751731115000968. Epub 2015 Jun 9. Review.


Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project.

Andersson L, Archibald AL, Bottema CD, Brauning R, Burgess SC, Burt DW, Casas E, Cheng HH, Clarke L, Couldrey C, Dalrymple BP, Elsik CG, Foissac S, Giuffra E, Groenen MA, Hayes BJ, Huang LS, Khatib H, Kijas JW, Kim H, Lunney JK, McCarthy FM, McEwan JC, Moore S, Nanduri B, Notredame C, Palti Y, Plastow GS, Reecy JM, Rohrer GA, Sarropoulou E, Schmidt CJ, Silverstein J, Tellam RL, Tixier-Boichard M, Tosser-Klopp G, Tuggle CK, Vilkki J, White SN, Zhao S, Zhou H; FAANG Consortium.

Genome Biol. 2015 Mar 25;16:57. doi: 10.1186/s13059-015-0622-4.


Genome-wide DNA methylation analysis: no evidence for stable hemimethylation in the sheep muscle genome.

Couldrey C, Brauning R, Henderson HV, McEwan JC.

Anim Genet. 2015 Apr;46(2):185-9. doi: 10.1111/age.12268. Epub 2015 Feb 6.


Genetic parameters for predicted methane production and laser methane detector measurements.

Pickering NK, Chagunda MG, Banos G, Mrode R, McEwan JC, Wall E.

J Anim Sci. 2015 Jan;93(1):11-20. doi: 10.2527/jas.2014-8302. Epub 2014 Nov 17.


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