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Computational analysis of associations between alternative splicing and histone modifications
Author(s) -
Shindo Yuki,
Nozaki Tadasu,
Saito Rintaro,
Tomita Masaru
Publication year - 2013
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/j.febslet.2013.01.032
Subject(s) - rna splicing , histone , exon , alternative splicing , computational biology , exonic splicing enhancer , biology , genetics , precursor mrna , microbiology and biotechnology , gene , rna
Pre‐mRNA splicing is a complex process involving combinatorial effects of cis ‐ and trans ‐elements. Here, we focused on histone modifications as typical trans ‐regulatory elements and performed systematic analyses of associations between splicing patterns and histone modifications by using publicly available ChIP‐Seq, mRNA‐Seq, and exon‐array data obtained in two human cell lines. We found that several types of histone modifications including H3K36me3 were associated with the inclusion or exclusion of alternative exons. Furthermore, we observed that the levels of H3K36me3 and H3K79me1 in the cell lines were well correlated with the differences in alternative splicing patterns between the cell lines.