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Epigenetic features are significantly associated with alternative splicing

Authors
  • Zhou, Yuanpeng1
  • Lu, Yulan1
  • Tian, Weidong1
  • 1 Fudan University, State Key Laboratory of Genetic Engineering, Institute of Biostatistics, School of Life Science, 220 Handan Rd, Shanghai, 2004333, China , Shanghai (China)
Type
Published Article
Journal
BMC Genomics
Publisher
Springer (Biomed Central Ltd.)
Publication Date
Mar 29, 2012
Volume
13
Issue
1
Identifiers
DOI: 10.1186/1471-2164-13-123
Source
Springer Nature
Keywords
License
Yellow

Abstract

BackgroundWhile alternative splicing (AS) contributes greatly to protein diversities, the relationship between various types of AS and epigenetic factors remains largely unknown.ResultsIn this study, we discover that a number of epigenetic features, including DNA methylation, nucleosome occupancy, specific histone modifications and protein features, are strongly associated with AS. To further enhance our understanding of the association between these features and AS, we cluster our investigated features based on their association patterns with each AS type into four groups, with H3K36me3, EGR1, GABP, SRF, SIN3A and RNA Pol II grouped together and showing strongest association with AS. In addition, we find that the AS types can be classified into two general classes, namely the exon skipping related process (ESRP), and the alternative splice site selection process (ASSP), based on their association levels with the epigenetic features.ConclusionOur analysis thus suggests that epigenetic features are likely to play important roles in regulating AS.

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