Synbreed Biodiversity Panel Genotypes

<strong>Synbreed Diversity Panel Genotypes</strong> These data have been made available coupled with the publication of Beissinger, T., Gholami, M., Erbe, M., Weigend, S., Weigend, A., de Leon, N., Gianola, D., and Simianer, H., <em>Using the Varibility of Linkage Disequilibrium Between Populations to Infer Sweeps and Epistatic Selection in a Diverse Panel of Chickens</em>, Heredity, 2015. Please cite upon use. <strong>Synbreed – Synergistic Plant and Animal Breeding</strong> (Synbreed) was funded by the German Federal Ministry of Education and Research (BMBF) from 2009 -<br>2014 (Funding ID: 0315526) ; web address http://www.synbreed.tum.de/ ***<br>Samples were genotyped with 580K SNP Affymetrix Axiom® Genome-Wide Chicken Genotyping Array. <strong>Genotype_Matrix.Robj</strong><br>This file is a matrix of genotypes from 1,417 chickens encompassing 72 breeds, genotyped as part of the Synbreed Project. The file can be loaded into R with the load() command. Individuals are in rows and marker genotypes, coded 0, 1, and 2, are in columns. Row names are a breed index, so all rows named "1" are from breed 1, all rows named "2" are from breed 2, and so on. Column names are marker names. <strong>Genotype_Map.Robj</strong><br>This file is a map describing the 564,939 markers that were genotyped. The file can be loaded into R with the load() command. Each row describes a marker. The first column, named "SNP" provides the marker name. This column corresponds to the rows of the Genotype_Matrix.Robj file. The second column, named "Chr", is the chromosome. The third column, named "Pos", is the physical position of the marker.