Notice of Retraction: Chromatin organization in different types of splicing events

5th International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2011

Volumn , Issue , 2011, Pages

  Huang, Huan ^a   Yu, Shuangxin ^a   Liu, Hongde ^a   Sun, Xiao ^a  

^a SOUTHEAST UNIVERSITY   (China)

Author keywords

Chromatain organization; Histone modification; Nucleosome positioning; Splicing event

Indexed keywords

BIOMEDICAL ENGINEERING;

ALTERNATIVE SPLICING; CHROMATIN ORGANIZATION; GENE TRANSCRIPTIONS; HISTONE MODIFICATION; LENGTH DISTRIBUTIONS; NUCLEOSOMES; PRE-MRNA SPLICING;

TRANSCRIPTION;

EID: 79960110125     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/icbbe.2011.5780097     Document Type: TB

References (25)

1. Arya G, Maitra A, Grigoryev SA. A structural perspective on the where, how, why, and what of nucleosome positioning. J Biomol Struct Dyn. 2010;27:803-20.
2. Radman-Livaja M, Rando OJ. Nucleosome positioning: How is it established, and why does it matter? Developmental Biology. 2010;339:258-66.
3. Allemand E, Batsche E, Muchardt C. Splicing, transcription, and chromatin: a menage a trois. Curr Opin Genet Dev. 2008;18:145-51.
4. Singh J, Padgett RA. Rates of in situ transcription and splicing in large human genes. Nat Struct Mol Biol. 2009;16:1128-33.
5. Bentley DL. Rules of engagement: co-transcriptional recruitment of pre-mRNA processing factors. Curr Opin Cell Biol. 2005;17:251-6.
6. Pandit S, Wang D, Fu XD. Functional integration of transcriptional and RNA processing machineries. Curr Opin Cell Biol. 2008;20:260-5.
7. Pandya-Jones A, Black DL. Co-transcriptional splicing of constitutive and alternative exons. RNA. 2009;15:1896-908.
8. Spies N, Nielsen CB, Padgett RA, Burge CB. Biased chromatin signatures around polyadenylation sites and exons. Mol Cell. 2009;36:245-54.
9. Schwartz S, Meshorer E, Ast G. Chromatin organization marks exon-intron structure. Nat Struct Mol Biol. 2009;16:990- 5.
10. Tilgner H, Nikolaou C, Althammer S, Sammeth M, Beato M, Valcarcel J, et al. Nucleosome positioning as a determinant of exon recognition. Nat Struct Mol Biol. 2009;16:996-1001.
11. Chen W, Luo L, Zhang L. The organization of nucleosomes around splice sites. Nucleic Acids Res. 2010;38:2788-98.
12. Luco RF, Pan Q, Tominaga K, Blencowe BJ, Pereira- Smith OM, Misteli T. Regulation of alternative splicing by histone modifications. Science. 2010;327:996-1000.
13. Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, Wang Z, et al. High-resolution profiling of histone methylations in the human genome. Cell. 2007;129:823-37.
14. Wang Z, Zang C, Rosenfeld JA, Schones DE, Barski A, Cuddapah S, et al. Combinatorial patterns of histone acetylations and methylations in the human genome. Nat Genet. 2008;40:897-903.
15. Kolasinska-Zwierz P, Down T, Latorre I, Liu T, Liu XS, Ahringer J. Differential chromatin marking of introns and expressed exons by H3K36me3. Nat Genet. 2009;41:376-81.
16. Ast G. How did alternative splicing evolve? Nat Rev Genet. 2004;5:773-82.
17. Sammeth M, Foissac S, Guigo R. A general definition and nomenclature for alternative splicing events. PLoS Comput Biol. 2008;4:e1000147.
18. Schones DE, Cui K, Cuddapah S, Roh TY, Barski A, Wang Z, et al. Dynamic regulation of nucleosome positioning in the human genome. Cell. 2008;132:887-98.
19. Zhang Y, Shin H, Song JS, Lei Y, Liu XS. Identifying positioned nucleosomes with epigenetic marks in human from ChIP-Seq. BMC Genomics. 2008;9:537.
20. Andersson R, Enroth S, Rada-Iglesias A, Wadelius C, Komorowski J. Nucleosomes are well positioned in exons and carry characteristic histone modifications. Genome Res. 2009;19:1732-41.
21. Roh TY, Cuddapah S, Cui K, Zhao K. The genomic landscape of histone modifications in human T cells. Proc Natl Acad Sci U S A. 2006;103:15782-7.
22. Song S, Huang Q, Guo J, Li-Ling J, Chen X, Ma F. Comparative component analysis of exons with different splicing frequencies. PLoS One. 2009;4:e5387.
23. Fox-Walsh KL, Dou Y, Lam BJ, Hung SP, Baldi PF, Hertel KJ. The architecture of pre-mRNAs affects mechanisms of splice-site pairing. Proc Natl Acad Sci U S A. 2005;102:16176-81.
24. Sakharkar MK, Chow VT, Kangueane P. Distributions of exons and introns in the human genome. In Silico Biol. 2004;4:387-93.
25. Schwartz S, Ast G. Chromatin density and splicing destiny: on the cross-talk between chromatin structure and splicing. EMBO J. 2010;29:1629-36.