Table 1

Summary of genotyping (GWAS) data and microarray gene expression data.

GWAS

Microarray gene expression


Source

CGEMS [24]

GEO: GDS2547 [25,26]

# of features

506,216 SNPs

10,595 genes

# of samples

Cases:1146

Controls: 1097

Cases: 64

Controls: 75

Phenotype

Prostate cancer

Subset 1 (17, normal prostate tissue)

Subset 2 (58, normal prostate adjacent to tumor)

Subset 3 (64, primary prostate tumor)

Platform

Illumina HumanHap300 and HumanHap240

Affymetrix Human Genome U95C array


CGEMS: The Cancer Genetic Markers of Susceptibility (CGEMS) project. GEO: Gene Expression Omnibus.

Jia et al. BMC Systems Biology 2012 6(Suppl 3):S13   doi:10.1186/1752-0509-6-S3-S13

Open Data