Algorithms for differential splicing detection using exon arrays: a comparative assessment.

ABSTRACT:

Background

The analysis of differential splicing (DS) is crucial for understanding physiological processes in cells and organs. In particular, aberrant transcripts are known to be involved in various diseases including cancer. A widely used technique for studying DS are exon arrays. Over the last decade a variety of algorithms for the detection of DS events from exon arrays has been developed. However, no comprehensive, comparative evaluation including sensitivity to the most important data features has been conducted so far. To this end, we created multiple data sets based on simulated data to assess strengths and weaknesses of seven published methods as well as a newly developed method, KLAS. Additionally, we evaluated all methods on two cancer data sets that comprised RT-PCR val

SUBMITTER: Zimmermann K 

PROVIDER: S-EPMC4391533 | biostudies-literature | 2015 Feb

REPOSITORIES: biostudies-literature