SNPsea: an algorithm to identify cell types, tissues, and pathways affected by risk loci

<p>Updated May 20, 2014.</p> <p> </p> <p>This archive contains data for:</p> <p>Slowikowski, et al. <strong>SNPsea: an algorithm to identify cell types, tissues, and pathways that affect risk loci.</strong> Bioinformatics (2014). doi:10.1093/bioinformatics/btu326</p> <p> </p> <p>Please see the SNPsea documentation for more details:</p> <p>http://snpsea.readthedocs.org/en/latest/data.html</p> <p> </p> <p>CONTENTS</p> <p> </p> <p>GWAS SNPs on hg19 with P <= 5-e8 extracted from tables in pdfs.</p> <p><strong>Celiac_disease-Trynka2011-35_SNPs.gwas</strong><br><strong>HDL_cholesterol-Teslovich2010-46_SNPs.gwas</strong><br><strong>Multiple_sclerosis-IMSGC-51_SNPs.gwas</strong><br><strong>Red_blood_cell_count-Harst2012-45_SNPs.gwas</strong></p> <p><strong></strong><strong> </strong></p> <p><strong>GeneAtlas2004.gct.gz</strong><br><em>- Gene Atlas 2004 gene expression matrix (Affymetrix)</em></p> <p><strong>ImmGen2012.gct.gz</strong><br><em>- ImmGen 2012 gene expression matrix (Affymetrix)</em></p> <p><strong>FANTOM2014.gct.gz</strong><br><em>- RIKEN FANTOM5 gene expression matrix (CAGE)</em></p> <p><strong>GO2013.gct.gz</strong><br><em>- Gene Ontology 2013 gene annotation matrix (binary annotations)</em></p> <p><em><br></em></p> <p><strong>NCBIgenes2013.bed.gz</strong><br><em>- Homo sapiens NCBI gene intervals</em></p> <p><strong>Lango2010.txt.gz</strong><br><em>- LD-pruned SNPs</em></p> <p><strong>TGP2011.bed.gz</strong><br><em>- 1000 Genomes Project SNP linkage disequilibrium (LD) intervals</em></p>