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Updated: Jun 18, 2026
08:35
Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
Published on: June 24, 2021
MADS+: discovery of differential splicing events from Affymetrix exon junction array data
Shihao Shen1, Claude C Warzecha, Russ P Carstens
1Department of Biostatistics, University of Iowa, Iowa City, IA, USA.
Bioinformatics (Oxford, England)
|November 26, 2009
Summary
A new computational pipeline, MADS+, accurately detects differential splicing events using Affymetrix exon junction arrays. This tool identifies hundreds of exons influenced by splicing regulators like ESRP1, with high validation rates.
Area of Science:
- Genomics
- Molecular Biology
- Bioinformatics
Background:
- The Affymetrix Human Exon Junction Array offers high-density analysis of alternative splicing.
- It features increased probe density for exon-exon junctions compared to previous arrays.
Purpose of the Study:
- To introduce MADS+, a computational pipeline for analyzing Affymetrix exon junction array data.
- To detect differential splicing events between sample groups.
Main Methods:
- MADS+ evaluates probes targeting competing transcript isoforms.
- It identifies exons or splice sites with varying transcript inclusion levels.
Main Results:
- MADS+ demonstrates high accuracy in detecting differential splicing events.
- In an ESRP1 study, MADS+ identified hundreds of ESRP1-dependent exons with 88.5% RT-PCR validation.
Conclusions:
- MADS+ is a reliable tool for analyzing alternative splicing from exon junction array data.
- The pipeline facilitates the discovery of splicing regulatory events.
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