Data from: Development of a versatile resource from 1500 diverse genomes for post-genomics research

<p>This data set contains 32 million annotated SNPs having an average SNP density of 30 SNPs per kb and 12 non-synonymous SNPs per gene model. These SNPs were identified from a genetically diverse, worldwide, collection of soybean germplasm representing wild, landrace, and improved cultivars. A combination of new and publicly available re-sequencing data was used in this analysis. The accession genotypes and their annotations are described in the manuscript titled: "Analysis and characterization of 1500 diverse genome sequences as a versatile resource for post-genomics research". </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: AnLab_1.5K.SampleIDs.txt.</p> <p>File Name: AnLab_1.5K.SampleIDs.txt</p><p>Resource Description: Defines sample id's used in the vcf files</p></li><br><li><p>Resource Title: Chr01.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr01.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 1 SNP annotation</p></li><br><li><p>Resource Title: Chr01.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr01.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 1 sample genotypes</p></li><br><li><p>Resource Title: Chr02.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr02.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 2 SNP annotation</p></li><br><li><p>Resource Title: Chr02.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr02.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 2 sample genotypes</p></li><br><li><p>Resource Title: Chr03.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr03.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 3 SNP annotation</p></li><br><li><p>Resource Title: Chr03.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr03.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 3 sample genotypes</p></li><br><li><p>Resource Title: Chr04.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr04.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 4 SNP annotation</p></li><br><li><p>Resource Title: Chr04.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr04.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 4 sample genotypes</p></li><br><li><p>Resource Title: Chr05.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr05.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 5 SNP annotation</p></li><br><li><p>Resource Title: Chr05.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr05.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 5 sample genotypes</p></li><br><li><p>Resource Title: Chr06.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr06.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 6 SNP annotation</p></li><br><li><p>Resource Title: Chr06.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr06.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 6 sample genotypes</p></li><br><li><p>Resource Title: Chr07.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr07.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 7 SNP annotation</p></li><br><li><p>Resource Title: Chr07.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr07.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 7 sample genotypes</p></li><br><li><p>Resource Title: Chr08.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr08.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 8 SNP annotation</p></li><br><li><p>Resource Title: Chr08.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr08.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 8 sample genotypes</p></li><br><li><p>Resource Title: Chr09.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr09.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 9 SNP annotation</p></li><br><li><p>Resource Title: Chr09.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr09.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 9 sample genotypes</p></li><br><li><p>Resource Title: Chr10.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr10.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 10 SNP annotation</p></li><br><li><p>Resource Title: Chr10.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr10.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 10 sample genotypes</p></li><br><li><p>Resource Title: Chr11.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr11.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 11 SNP annotation</p></li><br><li><p>Resource Title: Chr11.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr11.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 11 sample genotypes</p></li><br><li><p>Resource Title: Chr12.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr12.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 12 SNP annotation</p></li><br><li><p>Resource Title: Chr12.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr12.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 12 sample genotypes</p></li><br><li><p>Resource Title: Chr13.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr13.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 13 SNP annotation</p></li><br><li><p>Resource Title: Chr13.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr13.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 13 sample genotypes</p></li><br><li><p>Resource Title: Chr14.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr14.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 14 SNP annotation</p></li><br><li><p>Resource Title: Chr14.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr14.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 14 sample genotypes</p></li><br><li><p>Resource Title: Chr15.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr15.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 15 SNP annotation</p></li><br><li><p>Resource Title: Chr15.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr15.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 15 sample genotypes</p></li><br><li><p>Resource Title: Chr16.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr16.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 16 SNP annotation</p></li><br><li><p>Resource Title: Chr16.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr16.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 16 sample genotypes</p></li><br><li><p>Resource Title: Chr17.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr17.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 17 SNP annotation</p></li><br><li><p>Resource Title: Chr17.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr17.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 17 sample genotypes</p></li><br><li><p>Resource Title: Chr18.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr18.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 18 SNP annotation</p></li><br><li><p>Resource Title: Chr18.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr18.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 18 sample genotypes</p></li><br><li><p>Resource Title: Chr19.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr19.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 19 SNP annotation</p></li><br><li><p>Resource Title: Chr19.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr19.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 19 sample genotypes</p></li><br><li><p>Resource Title: Chr20.AnLab_1.5K.gtf.gz.</p> <p>File Name: Chr20.AnLab<em>1.5K.gtf</em>.gz</p><p>Resource Description: Chromosome 20 SNP annotation</p></li><br><li><p>Resource Title: Chr20.AnLab_1.5K.vcf.gz.</p> <p>File Name: Chr20.AnLab<em>1.5K.vcf</em>.gz</p><p>Resource Description: Chromosome 20 sample genotypes</p></li><br><li><p>Resource Title: Data_Directory.AnLab_1.5k.csv.</p> <p>File Name: Data_Directory.AnLab_1.5k.csv</p><p>Resource Description: This is the data directory for this data set</p></li></ul><p></p>

Tags: ars, data-gov, genetic-diversity, genomics, grin, linkage-disequilibrium, np301, snps, soybean, whole-genome-resequencing
Organization: Department of Agriculture