immuneResponseRNA plugin

Use the immuneResponseRNA plugin to quantify gene expression levels for the Oncomine™ Immune Response Research Assay. This plugin produces gene transcript quantification from sequence read data. The plugin summary includes gene expression counts (number of aligned reads to a given gene target), a data analysis summary, and QC plots. The normalized, gene-level count data from the run are available to download for further analyses with Transcriptome Analysis Console (TAC) v3.1 software.

The immuneResponseRNA plugin requires a target regions BED file and an associated reference sequence library FASTA file. For more information on installing these files, see References management.

The plugin also accepts a second (optional) BED file that specifies a subset of target genes allowing sample clustering.