If you open a project file for a Transcriptome project with Alternative splicing, then the NextGENe Viewer has visualization options that are application-specific. A Transcript report, which is an application-specific report, is also available. You can also identify the genes that are differentially expressed in transcriptome (RNA-Seq) data, and then upload the report results to Pathway Studio for visualization of the differential expression analysis values as well as biological pathway information.