CEDER: accurate detection of differentially expressed genes by combining significance of exons using RNA-Seq.

ABSTRACT: RNA-Seq is widely used in transcriptome studies, and the detection of differentially expressed genes (DEGs) between two classes of individuals, e.g., cases versus controls, using RNA-Seq is of fundamental importance. Many statistical methods for DEG detection based on RNA-Seq data have been developed and most of them are based on the read counts mapped to individual genes. On the other hand, genes are composed of exons and the distribution of reads for the different exons can be heterogeneous. We hypothesize that the detection accuracy of differentially expressed genes can be increased by analyzing individual exons within a gene and then combining the results of the exons. We therefore developed a novel program, termed CEDER, to accurately detect DEGs by combining the significance of the e

SUBMITTER: Wan L 

PROVIDER: S-EPMC3488134 | biostudies-literature | 2012 Sep-Oct

REPOSITORIES: biostudies-literature