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Nucleosome deposition and DNA methylation at coding region boundaries

Jung Kyoon Choi1, Jae-Bum Bae1, Jaemyun Lyu1, Tae-Yoon Kim2 and Young-Joon Kim1*

Author Affiliations

1 Department of Biochemistry, College of Life Science and Technology, Yonsei University, 134 Sinchon-dong, Seodaemun-gu, Seoul, Korea

2 Laboratory of Dermato-Immunology, The Catholic University of Korea, 505 Banpo-dong, Seocho-gu, Seoul, Korea

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Genome Biology 2009, 10:R89  doi:10.1186/gb-2009-10-9-r89

Published: 1 September 2009

Additional files

Additional data file 1:

Nucleosome patterns surrounding the TSS, start codon, and stop codon in yeast and fly.

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Additional data file 2:

Illustrative genes with nucleosomal peaks at coding boundaries.

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Additional data file 3:

DNA methylation level surrounding the transcript and coding region boundaries in the mouse liver.

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Additional data file 4:

Nucleosome occupancy according to differential Pol II elongation efficiency.

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Additional data file 5:

Densities of Ser5-phosphorylated and unphosphorylated Pol II.

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Additional data file 6:

Pol II density with higher and lower nucleosome occupancy.

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Additional data file 7:

DNA bending propensity at the start and stop codons.

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Additional data file 8:

Length of the 5' UTR and gene expression level for genes with high CpG density around the start codon.

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Additional data file 9:

Overall patterns of nucleosome occupancy and DNA methylation level inside the protein coding region.

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Open Data