Gene set analysis controlling for length bias in RNA-seq experiments.

ABSTRACT:

Background

In gene set analysis, the researchers are interested in determining the gene sets that are significantly correlated with an outcome, e.g. disease status or treatment. With the rapid development of high throughput sequencing technologies, Ribonucleic acid sequencing (RNA-seq) has become an important alternative to traditional expression arrays in gene expression studies. Challenges exist in adopting the existent algorithms to RNA-seq data given the intrinsic difference of the technologies and data. In RNA-seq experiments, the measure of gene expression is correlated with gene length. This inherent correlation may cause bias in gene set analysis.

Results

We develop SeqGSA, a new method for gene set analysis with length bias adjustment for RNA-seq data. It extends fr

SUBMITTER: Ren X 

PROVIDER: S-EPMC5294840 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature