Computational analysis of associations between alternative splicing and histone modifications.
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.
Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan.
Yuki
Y
Shindo
Tadasu
T
Nozaki
Rintaro
R
Saito
Masaru
M
Tomita
D017398:Alternative Splicing; D002460:Cell Line; D019295:Computational Biology; D005091:Exons; D006657:Histones / Q000378:metabolism* / Q000502:physiology; D006801:Humans; D008745:Methylation; D020033:Protein Isoforms / Q000235:genetics / Q000378:metabolism; D011499:Protein Processing, Post-Translational; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D017422:Sequence Analysis, DNA; D017423:Sequence Analysis, RNA
D006657:Histones; D020033:Protein Isoforms; D012333:RNA, Messenger