RNA-Seq with iReport and InSilico DB

rna-seqRNA-Seq, or transcriptome sequencing, continues to be an exciting way to explore gene expression using next-generation sequencing (NGS). But for many researchers, the interpretation of RNA-Seq data remains a daunting task because they are using spreadsheets to read transcript names and expression values.

QIAGEN® Ingenuity iReport™ provides researchers an interactive web-based report optimized for gene expression experiments from RNA-Seq, microarray, and real-time PCR platforms.  The iReport Data Analysis Pipeline incorporates best practices in statistical, quality, and differential expression analysis of gene expression data, providing a fast way to understand the biological meaning of your expression data.

For users of InSilico DB, InSilico Genomics recently posted to their blog a simple two-step tutorial on how to visualize and interpret RNA-Seq differential gene expression and pathway analysis results with iReport. Last spring, Ingenuity also posted on how to use the new integration of QIAGEN’s Ingenuity applications with the InSilico DB open data management platform.

InSilico DB contains a large number of microarray and NGS datasets originating from public repositories, NCBI Gene Expression Omnibus (GEO), Short Read Archive (SRA), The Cancer Genome Atlas project (TCGA) and the Broad Institute, among others. Currently, InSilico DB supports Affymetrix and Illumina gene expression microarray and Illumina NGS platforms.