Genome-wide analysis of alternative splicing in Caenorhabditis elegans
- Arun K Ramani1,
- John A Calarco1,
- Qun Pan1,
- Sepand Mavandadi1,
- Ying Wang1,
- Andrew C Nelson2,
- Leo J Lee1,
- Quaid Morris1,
- Benjamin Blencowe1,
- Mei Zhen1 and
- Andrew G Fraser1,3
- * Corresponding author; email: andyfraser.utoronto{at}gmail.com
Abstract
Alternative splicing (AS) plays a crucial role in the diversification of gene function and regulation. Consequently, the systematic identification and characterization of temporally regulated splice variants is of critical importance to understanding animal development. We have used high-throughput RNA sequencing and microarray profiling to analyze AS in C. elegans across various stages of development. This analysis identified thousands of novel splicing events including hundreds of developmentally-regulated AS events. To make these data easily accessible and informative, we constructed the C. elegans Splice Browser, a web resource in which researchers can mine AS events of interest and retrieve information about their relative levels and regulation across development. The data presented in this study, along with the Splice Browser, provides the most comprehensive set of annotated splice variants in C. elegans to date, and is therefore expected to faciliate focused, high resolution in vivo functional assays of AS function.
- Received September 1, 2010.
- Accepted December 7, 2010.
- Copyright © 2010, Cold Spring Harbor Laboratory Press
This manuscript is Open Access.
