Nucleosomes are well positioned at both ends of exons

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 6330 LNBI, Issue PART 3, 2010, Pages 291-297

  Liu, Hongde ^a   Sun, Xiao ^a  

^a SOUTHEAST UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

ALTERNATIVE SPLICING; CHROMATIN STRUCTURE; GENE REGULATIONS; IN-VIVO; NUCLEOSOMES; SPLICE SITE;

COMPUTER SIMULATION; SITE SELECTION; TRANSCRIPTION;

INTELLIGENT COMPUTING;

EID: 78649575971     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-15615-1_35     Document Type: Conference Paper

References (13)

1. Jiang, C., Pugh, B.F.: Nucleosome positioning and gene regulation: advances through genomics. Nat. Rev. Genet. 10(3), 161-172 (2009)
2. Emanue, R., Benjamin, J.B.: Gene Expression: The Close Coupling Dispatch of Transcription and Splicing. Curr. Biol. 12(9), R319-R321 (2002)
3. Fong, Y.W., Zhou, Q.: Stimulatory effect of splicing factors on transcriptional elongation. Nature 414, 929-933 (2001)
4. Schones, D.E., Cui, K., Cuddapah, S., Roh, T.Y., Barski, A., Wang, Z.B., Wei, G., Zhao, K.J.: Dynamic Regulation of Nucleosome Positioning in the Human Genome. Cell 132, 887-898 (2008)
5. Tilgner, H., Nikolaou, C., Althammer, S., Sammeth, M., Beato, M., Valcárcel, J., Guigó, R.: Nucleosome positioning as a determinant of exon recognition. Nat. Struct. Mol. Biol. 16(9), 996-1001 (2009)
6. Jung, K.C., Bae, J.B., Lyu, J., Kim, T.Y., Kim, Y.J.: Nucleosome deposition and DNA methylation at coding region boundaries. Genome Biol. 10, R89 (2009)
7. Andersson, R., Enroth, S., Rada-Iglesias, A., Wadelius, C., Komorowski, J.: Nucleosomes are well positioned in exons and carry characteristic histone modifications. Genome Res. 19, 732-1741 (2009)
8. Kogan, S., Trifonov, E.N.: Gene splice sites correlate with nucleosome positions. Gene 6(352), 57-62 (2005)
9. Segal, E., Mittendorf, Y.F., Chen, L., Thåström, A., Field, Y., Moore, I.K., Wang, J.Z., Widom, J.: A genomic code for nucleosome positioning. Nature 442(17), 772-778 (2006)
10. Yuan, G.C., Liu, J.S.: Genomic sequence is highly predictive of local nucleosome depletion. PLoS Comput. Biol. 4, e13 (2008)
11. Miele, V., Vaillant, C., d'Aubenton-Carafa, Y., Thermes, C., Grange, T.: DNA physical properties determine nucleosome occupancy from yeast to fly. Nucl. Acids. Res. 36, 3746-3756 (2008)
12. Tolstorukov, M.Y., Choudhary, V., Olson, W.K., Zhurkin, V.B., Park, P.J.: nuScore: a web-interface for nucleosome positioning predictions. Bioinformatics 24, 1456-1458 (2008)
13. Liu, H.D., Wu, J.S., Xie, J.M., Yang, X.N., Lu, Z.H., Sun, X.: Characteristics of nucleosome core DNA and their applications in predicting nucleosome positions. Biophys. J. 94(12), 4597-4604 (2008)