RNA-Enrich: a cut-off free functional enrichment testing method for RNA-seq with improved detection power.

ABSTRACT:

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Tests for differential gene expression with RNA-seq data have a tendency to identify certain types of transcripts as significant, e.g. longer and highly-expressed transcripts. This tendency has been shown to bias gene set enrichment (GSE) testing, which is used to find over- or under-represented biological functions in the data. Yet, there remains a surprising lack of tools for GSE testing specific for RNA-seq. We present a new GSE method for RNA-seq data, RNA-Enrich, that accounts for the above tendency empirically by adjusting for average read count per gene. RNA-Enrich is a quick, flexible method and web-based tool, with 16 available gene annotation databases. It does not require a P-value cut-off to define differential expression, and works well even with small sampl

SUBMITTER: Lee C 

PROVIDER: S-EPMC5860544 | biostudies-literature | 2016 Apr

REPOSITORIES: biostudies-literature