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

Updated May 20, 2014. This archive contains data for: Slowikowski, et al. SNPsea: an algorithm to identify cell types, tissues, and pathways that affect risk loci. Bioinformatics (2014). doi:10.1093/bioinformatics/btu326 Please see the SNPsea documentation for more details: snpsea.readthedocs.org/en/latest/data.html CONTENTS GWAS SNPs on hg19 with P <= 5-e8 extracted from tables in pdfs.

Celiac_disease-Trynka2011-35_SNPs.gwas HDL_cholesterol-Teslovich2010-46_SNPs.gwas Multiple_sclerosis-IMSGC-51_SNPs.gwas Red_blood_cell_count-Harst2012-45_SNPs.gwas GeneAtlas2004.gct.gz - Gene Atlas 2004 gene expression matrix (Affymetrix) ImmGen2012.gct.gz - ImmGen 2012 gene expression matrix (Affymetrix) FANTOM2014.gct.gz - RIKEN FANTOM5 gene expression matrix (CAGE) GO2013.gct.gz - Gene Ontology 2013 gene annotation matrix (binary annotations) NCBIgenes2013.bed.gz - Homo sapiens NCBI gene intervals Lango2010.txt.gz - LD-pruned SNPs TGP2011.bed.gz - 1000 Genomes