Abstract
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.
| Original language | English |
|---|---|
| Pages (from-to) | 516-521 |
| Number of pages | 6 |
| Journal | FEBS Letters |
| Volume | 587 |
| Issue number | 5 |
| DOIs | |
| Publication status | Published - 2013 Mar 1 |
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Keywords
- Computational analysis
- Histone modification
- Splicing
ASJC Scopus subject areas
- Biochemistry
- Biophysics
- Cell Biology
- Genetics
- Molecular Biology
- Structural Biology
Cite this
Computational analysis of associations between alternative splicing and histone modifications. / Shindo, Yuki; Nozaki, Tadasu; Saito, Rintaro; Tomita, Masaru.
In: FEBS Letters, Vol. 587, No. 5, 01.03.2013, p. 516-521.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Computational analysis of associations between alternative splicing and histone modifications
AU - Shindo, Yuki
AU - Nozaki, Tadasu
AU - Saito, Rintaro
AU - Tomita, Masaru
PY - 2013/3/1
Y1 - 2013/3/1
N2 - 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.
AB - 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.
KW - Computational analysis
KW - Histone modification
KW - Splicing
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UR - http://www.scopus.com/inward/citedby.url?scp=84874189918&partnerID=8YFLogxK
U2 - 10.1016/j.febslet.2013.01.032
DO - 10.1016/j.febslet.2013.01.032
M3 - Article
C2 - 23353998
AN - SCOPUS:84874189918
VL - 587
SP - 516
EP - 521
JO - FEBS Letters
JF - FEBS Letters
SN - 0014-5793
IS - 5
ER -