Genotypes, SNP, sample, and population information for 1,615 cattle from 137 breeds

This file contains the genotypes from 43,018 SNP markers scored in 1,615 cattle. Samples were genotyped with the Illumina BovineSNP50 BeadChip. Genotypes were called using GenomeStudio. Genotypes were filtered using PLINK

Additional file 1: of What’s in your next-generation sequence data? An exploration of unmapped DNA and RNA sequence reads from the bovine reference individual

Table S1. Statistics from the de novo assembly of unmapped reads from DNA sequencing. Table S2. Statistics from the de novo assembly of unmapped reads from RNA sequencing. Table S3. Summary of all significant alignments from pairwise alignment of de novo assembled contigs from DNA unmapped reads to the nt database. Table S4. Number of significant alignments per tissue from pairwise alignment of de novo assembled contigs from unmapped RNA-seq reads to the nt database. Table S5. Summary of all significant alignments from pairwise alignment of de novo assembled contigs from unmapped RNA-seq reads to the nt database. Table S6. DNA sequencing metadata. Table S7. Genes represented in alignments of de novo assembled contigs from unmapped RNA-seq reads to Bos taurus. Table S8. Genes represented in alignments of de novo assembled contigs from unmapped RNA-seq reads to Bison bison bison, Bubalus bubalis, or Bos mutus. (XLSX 731 kb

Additional file 2: of What’s in your next-generation sequence data? An exploration of unmapped DNA and RNA sequence reads from the bovine reference individual

Note 1: The Onchocerca ochengi reference assembly is contaminated with bovine genomic sequence. Note 2: Estimation of the number of protein coding genes missing or misassembled in the UMD3.1 bovine reference assembly. (DOCX 41 kb

Additional file 1: of Genome-wide association study for feed efficiency and growth traits in U.S. beef cattle

Summary data for all lead and supporting SNPs from the 778K analyses for RFI, DMI, ADG, and MMWT, including dbSNP identifiers and QTL coordinates. (XLSX 710 kb