SplicerAV: a tool for mining microarray expression data for changes in RNA processing

BMC Bioinformatics

Table 2 SplicerAV predicts oncogene-induced changes in isoform specific mRNA levels.

	Unique Expressed Genes		SplicerAV Predictions (P < .01)
GFP vs.	Total	Multi-probeset Genes	Alt. Processed Genes	Genes with Splice Score > 0	Significant Gene Ontologies
HRAS	7227	2185	645	212	mRNA splicing (12) Complement med immunity (3) G-protein mediated signaling (10)
SRC	7007	2015	291	119	Transcription Elongation (2) mRNA splicing (7)
CTNNB1	7023	2019	159	54	mRNA processing factors (4)
E2F3	7313	2139	187	45	Cell surface receptor signal (10) G-protein mediated signaling (6) Mesoderm development (6) Cell structure and motility (11) pre-mRNA splicing (5) Granulocyte-mediate immunity (2)
MYC	7081	2040	115	12	---

The total number of unique genes expressed above background, targeted by multiple probesets, predicted to undergo changes in alternative processing, or those predicted to undergo ideal changes are shown in their respective columns for each oncogene (see text). Significantly enriched (p ≤ .05) biological processes or molecular functions of these genes are shown in order of decreasing significance. The number of genes in each GO category is shown in parentheses.

ISSN: 1471-2105