RNA-Seq Analysis with NextGENe Software

RNA sequencing is a powerful tool for interrogating the entire transcriptome at once. It allows identification of novel isoforms including gene fusions and alternative splicing- and expression level analysis across several orders of magnitude. NextGENe's new RNA-seq application can be used to analyze data from any of the three main 2nd generation sequencing systems including Roche GS FLX™ and FLX Titanium, Illumina Genome Analyzers, and Applied Biosystems SOLiD™ Systems. Variant detection, expression level analysis, and isoform identification are all performed in one analysis. The tool employs a hybrid approach, combining the use of an exon junction reference sequence with the de novo detection of exons. This allows discovery of previously un-annotated genes in addition to highly accurate alignment to known transcripts. All detected transcripts are reported in addition to the information provided by NextGENe's variant and expression reports. Results are shown in the NextGENe Viewer which provides a high level of visualization for review and editing.