RNA-Seq Atlas – a web-based repository of RNA-Seq gene expression profiles and query tools

RNA-Seq AtlasRNA-Seq Atlas is a web-based repository of RNA-Seq gene expression profiles and query tools. The website offers open and easy access to RNA-Seq gene expression profiles and tools to both compare tissues and find genes with specific expression patterns. To enlarge the scope of the RNA-Seq Atlas, the data were linked to common functional and genetic databases, in particular offering information on the respective gene, signaling pathway analysis and evaluation of biological functions by means of gene ontologies. Additionally, data were linked to several microarray gene profiles, including BioGPS normal tissue profiles and NCI60 cancer cellline expression data. The data search interface allows an integrative detailed comparison between the RNA-Seq data and the microarray information.

This database’s large scale RNA-Seq applications are versatile, and will be beneficial in identifying tissue specific genes and expression profiles, comparison of gene expression profiles among diverse tissues, but also systems biology approaches linking tissue function to gene expression changes.

Availability: http://medicalgenomics.org/rna_seq_atlas

Contact: kruppm@uni-mainz.de, teufel@uni-mainz.de

Krupp M, Marquardt JU, Sahin U, Galle PR, Castle J, Teufel A. (2012) RNA-Seq Atlas – A reference database for gene expression profiling in normal tissue by next generation sequencing. Bioinformatics [Epub ahead of print]. [abstract]