Format

Send to

Choose Destination
RNA Biol. 2012 Nov;9(11):1339-43. doi: 10.4161/rna.22182. Epub 2012 Oct 12.

SPLOOCE: a new portal for the analysis of human splicing variants.

Author information

1
Laboratory of Computational Biology, Ludwig Institute for Cancer Research; São Paulo, Brazil; Inter-institutional Program on Bioinformatics, University of São Paulo, São Paulo, Brazil.

Abstract

Understanding alternative splicing is crucial to elucidate the mechanisms behind several biological phenomena, including diseases. The huge amount of expressed sequences available nowadays represents an opportunity and a challenge to catalog and display alternative splicing events (ASEs). Although several groups have faced this challenge with relative success, we still lack a computational tool that uses a simple and straightforward method to retrieve, name and present ASEs. Here we present SPLOOCE, a portal for the analysis of human splicing variants. SPLOOCE uses a method based on regular expressions for retrieval of ASEs. We propose a simple syntax that is able to capture the complexity of ASEs.

KEYWORDS:

alternative splicing; bioinformatics; combined alternative splicing events; database; method of analysis; next-generation sequencing; regular expressions

PMID:
23064119
PMCID:
PMC3597574
DOI:
10.4161/rna.22182
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Taylor & Francis Icon for PubMed Central
Loading ...
Support Center