TY - STD TI - Statistics Canada 2016. http://www.statcan.gc.ca/pub/96-325-x/2014001/article/14027-eng.htm. Accessed 27 July 2016. UR - http://www.statcan.gc.ca/pub/96-325-x/2014001/article/14027-eng.htm ID - ref1 ER - TY - JOUR AU - Meuwissen, T. AU - Hayes, B. AU - Goddard, M. PY - 2001 DA - 2001// TI - Prediction of total genetic value using genome-wide dense marker maps JO - Genetics VL - 157 ID - Meuwissen2001 ER - TY - JOUR AU - Hayes, B. AU - Bowman, P. AU - Chamberlain, A. AU - Goddard, M. PY - 2009 DA - 2009// TI - Invited review: Genomic selection in dairy cattle: Progress and challenges JO - J Dairy Sci VL - 92 UR - https://doi.org/10.3168/jds.2008-1646 DO - 10.3168/jds.2008-1646 ID - Hayes2009 ER - TY - JOUR AU - VanRaden, P. AU - Van Tassell, C. AU - Wiggans, G. AU - Sonstegard, T. AU - Schnabel, R. AU - Taylor, J. AU - Schenkel, F. PY - 2009 DA - 2009// TI - Invited review: Reliability of genomic predictions for North American Holstein bulls JO - J Dairy Sci VL - 92 UR - https://doi.org/10.3168/jds.2008-1514 DO - 10.3168/jds.2008-1514 ID - VanRaden2009 ER - TY - JOUR AU - Duchemin, S. AU - Colombani, C. AU - Legarra, A. AU - Baloche, G. AU - Larroque, H. AU - Astruc, J. -. M. AU - Barillet, F. AU - Robert-Granié, C. AU - Manfredi, E. PY - 2012 DA - 2012// TI - Genomic selection in the French Lacaune dairy sheep breed JO - J Dairy Sci VL - 95 UR - https://doi.org/10.3168/jds.2011-4980 DO - 10.3168/jds.2011-4980 ID - Duchemin2012 ER - TY - JOUR AU - Taylor, J. F. AU - McKay, S. D. AU - Rolf, M. M. AU - Ramey, H. R. AU - Decker, J. E. AU - Schnabel, R. D. PY - 2012 DA - 2012// TI - Genomic selection in beef cattle JO - Bovine Genomics VL - 2012 UR - https://doi.org/10.1002/9781118301739.ch14 DO - 10.1002/9781118301739.ch14 ID - Taylor2012 ER - TY - JOUR AU - Carillier, C. AU - Larroque, H. AU - Palhière, I. AU - Clément, V. AU - Rupp, R. AU - Robert-Granié, C. PY - 2013 DA - 2013// TI - A first step toward genomic selection in the multi-breed French dairy goat population JO - J Dairy Sci VL - 96 UR - https://doi.org/10.3168/jds.2013-6789 DO - 10.3168/jds.2013-6789 ID - Carillier2013 ER - TY - JOUR AU - Daetwyler, H. AU - Kemper, K. AU - Van der Werf, J. AU - Hayes, B. PY - 2012 DA - 2012// TI - Components of the accuracy of genomic prediction in a multi-breed sheep population JO - J Anim Sci VL - 90 UR - https://doi.org/10.2527/jas.2011-4557 DO - 10.2527/jas.2011-4557 ID - Daetwyler2012 ER - TY - JOUR AU - Wolc, A. AU - Stricker, C. AU - Arango, J. AU - Settar, P. AU - Fulton, J. E. AU - O’Sullivan, N. P. AU - Preisinger, R. AU - Habier, D. AU - Fernando, R. AU - Garrick, D. J. PY - 2011 DA - 2011// TI - Breeding value prediction for production traits in layer chickens using pedigree or genomic relationships in a reduced animal model JO - Genet Sel Evol VL - 43 UR - https://doi.org/10.1186/1297-9686-43-1 DO - 10.1186/1297-9686-43-1 ID - Wolc2011 ER - TY - JOUR AU - Ostersen, T. AU - Christensen, O. F. AU - Henryon, M. AU - Nielsen, B. AU - Su, G. AU - Madsen, P. PY - 2011 DA - 2011// TI - Deregressed EBV as the response variable yield more reliable genomic predictions than traditional EBV in pure-bred pigs JO - Genet Sel Evol VL - 43 UR - https://doi.org/10.1186/1297-9686-43-38 DO - 10.1186/1297-9686-43-38 ID - Ostersen2011 ER - TY - JOUR AU - Meuwissen, T. H. PY - 2009 DA - 2009// TI - Accuracy of breeding values of ‘unrelated’ individuals predicted by dense SNP genotyping JO - Genet Sel Evol VL - 41 UR - https://doi.org/10.1186/1297-9686-41-1 DO - 10.1186/1297-9686-41-1 ID - Meuwissen2009 ER - TY - JOUR AU - De Roos, A. AU - Hayes, B. J. AU - Spelman, R. AU - Goddard, M. E. PY - 2008 DA - 2008// TI - Linkage disequilibrium and persistence of phase in Holstein–Friesian, Jersey and Angus cattle JO - Genetics VL - 179 UR - https://doi.org/10.1534/genetics.107.084301 DO - 10.1534/genetics.107.084301 ID - De Roos2008 ER - TY - JOUR AU - Badke, Y. M. AU - Bates, R. O. AU - Ernst, C. W. AU - Schwab, C. AU - Steibel, J. P. PY - 2012 DA - 2012// TI - Estimation of linkage disequilibrium in four US pig breeds JO - BMC Genomics VL - 13 UR - https://doi.org/10.1186/1471-2164-13-24 DO - 10.1186/1471-2164-13-24 ID - Badke2012 ER - TY - JOUR AU - Uimari, P. AU - Tapio, M. PY - 2011 DA - 2011// TI - Extent of linkage disequilibrium and effective population size in Finnish Landrace and Finnish Yorkshire pig breeds JO - J Anim Sci VL - 89 UR - https://doi.org/10.2527/jas.2010-3249 DO - 10.2527/jas.2010-3249 ID - Uimari2011 ER - TY - JOUR AU - Wang, L. AU - Sørensen, P. AU - Janss, L. AU - Ostersen, T. AU - Edwards, D. PY - 2013 DA - 2013// TI - Genome-wide and local pattern of linkage disequilibrium and persistence of phase for 3 Danish pig breeds JO - BMC Genet VL - 14 UR - https://doi.org/10.1186/1471-2156-14-115 DO - 10.1186/1471-2156-14-115 ID - Wang2013 ER - TY - JOUR AU - Zeng, J. AU - Toosi, A. AU - Fernando, R. L. AU - Dekkers, J. C. AU - Garrick, D. J. PY - 2013 DA - 2013// TI - Genomic selection of purebred animals for crossbred performance in the presence of dominant gene action JO - Genet Sel Evol VL - 45 UR - https://doi.org/10.1186/1297-9686-45-11 DO - 10.1186/1297-9686-45-11 ID - Zeng2013 ER - TY - BOOK AU - Falconer, D. S. AU - Mackay, T. F. PY - 1996 DA - 1996// TI - Introduction to Quantitative Genetics PB - Longman Group Ltd CY - Harlow ID - Falconer1996 ER - TY - JOUR AU - Ramos, A. M. AU - Crooijmans, R. P. AU - Affara, N. A. AU - Amaral, A. J. AU - Archibald, A. L. AU - Beever, J. E. AU - Bendixen, C. AU - Churcher, C. AU - Clark, R. AU - Dehais, P. PY - 2009 DA - 2009// TI - Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology JO - PLoS ONE VL - 4 UR - https://doi.org/10.1371/journal.pone.0006524 DO - 10.1371/journal.pone.0006524 ID - Ramos2009 ER - TY - JOUR AU - Fernández, A. I. AU - Pérez-Montarelo, D. AU - Barragán, C. AU - Ramayo-Caldas, Y. AU - Ibáñez-Escriche, N. AU - Castelló, A. AU - Noguera, J. L. AU - Silió, L. AU - Folch, J. M. AU - Rodríguez, M. C. PY - 2012 DA - 2012// TI - Genome-wide linkage analysis of QTL for growth and body composition employing the PorcineSNP60 BeadChip JO - BMC Genet VL - 13 UR - https://doi.org/10.1186/1471-2156-13-41 DO - 10.1186/1471-2156-13-41 ID - Fernández2012 ER - TY - STD TI - Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, Bender D. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007;81. ID - ref20 ER - TY - JOUR AU - VanRaden, P. PY - 2008 DA - 2008// TI - Efficient methods to compute genomic predictions JO - J Dairy Sci VL - 91 UR - https://doi.org/10.3168/jds.2007-0980 DO - 10.3168/jds.2007-0980 ID - VanRaden2008 ER - TY - JOUR AU - Zhang, Q. AU - Calus, M. P. AU - Guldbrandtsen, B. AU - Lund, M. S. AU - Sahana, G. PY - 2015 DA - 2015// TI - Estimation of inbreeding using pedigree, 50 k SNP chip genotypes and full sequence data in three cattle breeds JO - BMC Genet VL - 16 ID - Zhang2015 ER - TY - JOUR AU - Kim, E. -. S. AU - Cole, J. B. AU - Huson, H. AU - Wiggans, G. R. AU - Van Tassell, C. P. AU - Crooker, B. A. AU - Liu, G. AU - Da, Y. AU - Sonstegard, T. S. PY - 2013 DA - 2013// TI - Effect of artificial selection on runs of homozygosity in US Holstein cattle JO - PLoS ONE VL - 8 UR - https://doi.org/10.1371/journal.pone.0080813 DO - 10.1371/journal.pone.0080813 ID - Kim2013 ER - TY - JOUR AU - Sargolzaei, M. AU - Iwaisaki, H. AU - Colleau, J. J. PY - 2005 DA - 2005// TI - A fast algorithm for computing inbreeding coefficients in large populations JO - J Anim Breed Genet VL - 122 UR - https://doi.org/10.1111/j.1439-0388.2005.00538.x DO - 10.1111/j.1439-0388.2005.00538.x ID - Sargolzaei2005 ER - TY - STD TI - Team RC: R: A language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing; 2013. http://www.r-project.org. 2015. UR - http://www.r-project.org/ ID - ref25 ER - TY - JOUR AU - Sved, J. PY - 1971 DA - 1971// TI - Linkage disequilibrium and homozygosity of chromosome segments in finite populations JO - Theor Popul Biol VL - 2 UR - https://doi.org/10.1016/0040-5809(71)90011-6 DO - 10.1016/0040-5809(71)90011-6 ID - Sved1971 ER - TY - JOUR AU - Hayes, B. J. AU - Visscher, P. M. AU - McPartlan, H. C. AU - Goddard, M. E. PY - 2003 DA - 2003// TI - Novel multilocus measure of linkage disequilibrium to estimate past effective population size JO - Genome Res VL - 13 UR - https://doi.org/10.1101/gr.387103 DO - 10.1101/gr.387103 ID - Hayes2003 ER - TY - JOUR AU - Hill, W. AU - Robertson, A. PY - 1968 DA - 1968// TI - Linkage disequilibrium in finite populations JO - Theor Appl Genet VL - 38 UR - https://doi.org/10.1007/BF01245622 DO - 10.1007/BF01245622 ID - Hill1968 ER - TY - BOOK AU - Lynch, M. AU - Walsh, B. PY - 1998 DA - 1998// TI - Genetics and analysis of quantitative traits, vol. 1 PB - Sinauer CY - Sunderland ID - Lynch1998 ER - TY - JOUR AU - Veroneze, R. AU - Lopes, P. AU - Guimarães, S. AU - Silva, F. AU - Lopes, M. AU - Harlizius, B. AU - Knol, E. PY - 2013 DA - 2013// TI - Linkage disequilibrium and haplotype block structure in six commercial pig lines JO - J Anim Sci VL - 91 UR - https://doi.org/10.2527/jas.2012-6052 DO - 10.2527/jas.2012-6052 ID - Veroneze2013 ER - TY - JOUR AU - Ai, H. AU - Huang, L. AU - Ren, J. PY - 2013 DA - 2013// TI - Genetic diversity, linkage disequilibrium and selection signatures in Chinese and Western pigs revealed by genome-wide SNP markers JO - PLoS ONE VL - 8 UR - https://doi.org/10.1371/journal.pone.0056001 DO - 10.1371/journal.pone.0056001 ID - Ai2013 ER - TY - JOUR AU - Bosse, M. AU - Megens, H. -. J. AU - Madsen, O. AU - Paudel, Y. AU - Frantz, L. A. AU - Schook, L. B. AU - Crooijmans, R. P. AU - Groenen, M. A. PY - 2012 DA - 2012// TI - Regions of homozygosity in the porcine genome: consequence of demography and the recombination landscape JO - PLoS Genet VL - 8 UR - https://doi.org/10.1371/journal.pgen.1003100 DO - 10.1371/journal.pgen.1003100 ID - Bosse2012 ER - TY - JOUR AU - Purfield, D. C. AU - Berry, D. P. AU - McParland, S. AU - Bradley, D. G. PY - 2012 DA - 2012// TI - Runs of homozygosity and population history in cattle JO - BMC Genet VL - 13 UR - https://doi.org/10.1186/1471-2156-13-70 DO - 10.1186/1471-2156-13-70 ID - Purfield2012 ER - TY - JOUR AU - McQuillan, R. AU - Leutenegger, A. -. L. AU - Abdel-Rahman, R. AU - Franklin, C. S. AU - Pericic, M. AU - Barac-Lauc, L. AU - Smolej-Narancic, N. AU - Janicijevic, B. AU - Polasek, O. AU - Tenesa, A. PY - 2008 DA - 2008// TI - Runs of homozygosity in European populations JO - Am J Hum Genet VL - 83 UR - https://doi.org/10.1016/j.ajhg.2008.08.007 DO - 10.1016/j.ajhg.2008.08.007 ID - McQuillan2008 ER - TY - JOUR AU - Herrero-Medrano, J. M. AU - Megens, H. -. J. AU - Groenen, M. A. AU - Ramis, G. AU - Bosse, M. AU - Pérez-Enciso, M. AU - Crooijmans, R. P. PY - 2013 DA - 2013// TI - Conservation genomic analysis of domestic and wild pig populations from the Iberian Peninsula JO - BMC Genet VL - 14 UR - https://doi.org/10.1186/1471-2156-14-106 DO - 10.1186/1471-2156-14-106 ID - Herrero-Medrano2013 ER - TY - JOUR AU - Welsh, C. AU - Stewart, T. AU - Schwab, C. AU - Blackburn, H. PY - 2010 DA - 2010// TI - Pedigree analysis of 5 swine breeds in the United States and the implications for genetic conservation JO - J Anim Sci VL - 88 UR - https://doi.org/10.2527/jas.2009-2537 DO - 10.2527/jas.2009-2537 ID - Welsh2010 ER - TY - JOUR AU - Groenen, M. A. AU - Archibald, A. L. AU - Uenishi, H. AU - Tuggle, C. K. AU - Takeuchi, Y. AU - Rothschild, M. F. AU - Rogel-Gaillard, C. AU - Park, C. AU - Milan, D. AU - Megens, H. -. J. PY - 2012 DA - 2012// TI - Analyses of pig genomes provide insight into porcine demography and evolution JO - Nature VL - 491 UR - https://doi.org/10.1038/nature11622 DO - 10.1038/nature11622 ID - Groenen2012 ER - TY - JOUR AU - Frantz, A. C. AU - Zachos, F. E. AU - Kirschning, J. AU - Cellina, S. AU - Bertouille, S. AU - Mamuris, Z. AU - Koutsogiannouli, E. A. AU - Burke, T. PY - 2013 DA - 2013// TI - Genetic evidence for introgression between domestic pigs and wild boars (Sus scrofa) in Belgium and Luxembourg: a comparative approach with multiple marker systems JO - Biol J Linn Soc VL - 110 UR - https://doi.org/10.1111/bij.12111 DO - 10.1111/bij.12111 ID - Frantz2013 ER - TY - JOUR AU - Goedbloed, D. AU - Megens, H. AU - Van Hooft, P. AU - HERRERO-MEDRANO, J. AU - Lutz, W. AU - Alexandri, P. AU - Crooijmans, R. AU - Groenen, M. AU - Van Wieren, S. AU - Ydenberg, R. PY - 2013 DA - 2013// TI - Genome-wide single nucleotide polymorphism analysis reveals recent genetic introgression from domestic pigs into Northwest European wild boar populations JO - Mol Ecol VL - 22 UR - https://doi.org/10.1111/j.1365-294X.2012.05670.x DO - 10.1111/j.1365-294X.2012.05670.x ID - Goedbloed2013 ER - TY - JOUR AU - Koutsogiannouli, E. A. AU - Moutou, K. A. AU - Sarafidou, T. AU - Stamatis, C. AU - Mamuris, Z. PY - 2010 DA - 2010// TI - Detection of hybrids between wild boars (Sus scrofa scrofa) and domestic pigs (Sus scrofa f. domestica) in Greece, using the PCR-RFLP method on melanocortin-1 receptor (MC1R) mutations JO - Mammalian Biology-Zeitschrift für Säugetierkunde VL - 75 UR - https://doi.org/10.1016/j.mambio.2008.08.001 DO - 10.1016/j.mambio.2008.08.001 ID - Koutsogiannouli2010 ER - TY - JOUR AU - Melka, M. AU - Schenkel, F. PY - 2010 DA - 2010// TI - Analysis of genetic diversity in four Canadian swine breeds using pedigree data JO - Population VL - 420 ID - Melka2010 ER - TY - CHAP AU - Park, J. -. E. AU - Lee, J. -. h. AU - Son, J. -. H. AU - Lee, D. PY - 2014 DA - 2014// TI - Estimation of linkage disequilibrium and effective population size using whole genome single nucleotide polymorphisms in Korean native pig and Landrace BT - 10th World Congress on Genetics Applied to Livestock Production PB - Asas CY - Vancouver ID - Park2014 ER - TY - JOUR AU - Veroneze, R. AU - Bastiaansen, J. W. AU - Knol, E. F. AU - Guimarães, S. E. AU - Silva, F. F. AU - Harlizius, B. AU - Lopes, M. S. AU - Lopes, P. S. PY - 2014 DA - 2014// TI - Linkage disequilibrium patterns and persistence of phase in purebred and crossbred pig (Sus scrofa) populations JO - BMC Genet VL - 15 UR - https://doi.org/10.1186/s12863-014-0126-3 DO - 10.1186/s12863-014-0126-3 ID - Veroneze2014 ER - TY - JOUR AU - Sargolzaei, M. AU - Schenkel, F. AU - Jansen, G. AU - Schaeffer, L. PY - 2008 DA - 2008// TI - Extent of linkage disequilibrium in Holstein cattle in North America JO - J Dairy Sci VL - 91 UR - https://doi.org/10.3168/jds.2007-0553 DO - 10.3168/jds.2007-0553 ID - Sargolzaei2008 ER - TY - BOOK AU - Jafarikia, M. AU - Maignel, L. AU - Wyss, S. AU - Sullivan, B. PY - 2010 DA - 2010// TI - Linkage disequilibrium in Canadian swine breeds PB - 9th World Congress of Genetics Applied to Livestock Production CY - Leipzig ID - Jafarikia2010 ER - TY - JOUR AU - De Roos, A. AU - Hayes, B. AU - Goddard, M. PY - 2009 DA - 2009// TI - Reliability of genomic predictions across multiple populations JO - Genetics VL - 183 UR - https://doi.org/10.1534/genetics.109.104935 DO - 10.1534/genetics.109.104935 ID - De Roos2009 ER - TY - JOUR AU - Erbe, M. AU - Hayes, B. AU - Matukumalli, L. AU - Goswami, S. AU - Bowman, P. AU - Reich, C. AU - Mason, B. AU - Goddard, M. PY - 2012 DA - 2012// TI - Improving accuracy of genomic predictions within and between dairy cattle breeds with imputed high-density single nucleotide polymorphism panels JO - J Dairy Sci VL - 95 UR - https://doi.org/10.3168/jds.2011-5019 DO - 10.3168/jds.2011-5019 ID - Erbe2012 ER - TY - STD TI - NFACC. Code of practice for the care and handling of pigs. https://www.nfacc.ca/pdfs/codes/pig_code_of_practice.pdf. Accessed 15 July 2016. UR - https://www.nfacc.ca/pdfs/codes/pig_code_of_practice.pdf ID - ref48 ER -