Microarray based gene expression dataset considered for the present study consists of a total of 39 samples of the same WT condition, with 3923 genes in each sample [ 37].
DroID currently has two microarray-based gene expression datasets that can be used to constrain a search for interactions.
These results have been integrated with Affymetrix-based gene expression datasets of A9 and A10 cells available in the laboratory [ 15].
The importance of differential cPLA2 α activity in clinical breast cancer was established by relating the expression of cPLA2 α in tissue samples from breast cancer patients, and two microarray-based gene expression datasets to different clinicopathological and therapeutic parameters.
Primer pairs used for RT-QPCR are given in Additional file 3. To identify the TGF-β/Smad3-dependent gene expression signature, Smad3 ChIP-chip data and microarray-based gene expression datasets were integrated using Partek Genomic Suite 6.5 (Partek, St . Louis MO, USA).
Celsius, the largest co-normalized microarray dataset of Affymetrix based gene expression, was used to calculate the correlation between all possible gene pairs on all platforms, and generate stored indexes in a web searchable format.
The TCGA dataset contains microarray based gene expression data from over 500 high-grade ovarian cancer samples.
A number of methods, based on microarray gene expression datasets, have been proposed for measuring the tissue specificity of gene use.
Microarray based breast cancer gene expression datasets usually consist of a small number of samples due to the fact they are time consuming and expensive, which has always been an issue for accurately categorizing breast cancer prognosis groups [ 18].
Here, we present Drug-Path, a database of drug-induced pathways, which was generated by KEGG pathway enrichment analysis for drug-induced upregulated genes and downregulated genes based on drug-induced gene expression datasets in Connectivity Map.
