DEDB

a database of Drosophila melanogaster exons in splicing graph form

Bernett T K Lee, Tin Wee Tan, Shoba Ranganathan*

*Corresponding author for this work

Research output: Contribution to journalArticle

26 Citations (Scopus)

Abstract

Background: A wealth of quality genomic and mRNA/EST sequences in recent years has provided the data required for large-scale genome-wide analysis of alternative splicing. We have capitalized on this by constructing a database that contains alternative splicing information organized as splicing graphs, where all transcripts arising from a single gene are collected, organized and classified. The splicing graph then serves as the basis for the classification of the various types of alternative splicing events. Description: DEDB http://proline.bic.nus.edu.sg/dedb/index.html is a database of Drosophila melanogaster exons obtained from FlyBase arranged in a splicing graph form that permits the creation of simple rules allowing for the classification of alternative splicing events. Pfam domains were also mapped onto the protein sequences allowing users to access the impact of alternative splicing events on domain organization. Conclusions: DEDB's catalogue of splicing graphs facilitates genome-wide classification of alternative splicing events for genome analysis. The splicing graph viewer brings together genome, transcript, protein and domain information to facilitate biologists in understanding the implications of alternative splicing.

Original languageEnglish
Article number189
Pages (from-to)1-8
Number of pages8
JournalBMC Bioinformatics
Volume5
DOIs
Publication statusPublished - 7 Dec 2004

Fingerprint Dive into the research topics of 'DEDB: a database of Drosophila melanogaster exons in splicing graph form'. Together they form a unique fingerprint.

Cite this