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Open Access Highly Accessed Research article

Structural features based genome-wide characterization and prediction of nucleosome organization

Yanglan Gan13, Jihong Guan1*, Shuigeng Zhou2 and Weixiong Zhang234*

Author Affiliations

1 Department of Computer Science and Technology, Tongji University, Shanghai, China

2 Shanghai Key Lab of Intelligent Information Processing and School of Computer Science, Fudan University, Shanghai, China

3 Department of Computer Science, Washington University in St. Louis, St. Louis, USA

4 Department of Genetics, Washington University School of Medicine, St. Louis, USA

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BMC Bioinformatics 2012, 13:49  doi:10.1186/1471-2105-13-49

Published: 26 March 2012

Additional files

Additional file 1:

Supplemental Table 1. Pairwise Pearson correlation coefficients among structural profiles of 12 different structural features across the whole S.cerevisiae genome. Supplemental Table S2. Pearson correlation coefficients between the 12 structural features and the G + C content across the whole S.cerevisiae genome. Supplemental Figure S1. The comparison between structural profiles and experimental nucleosome occupancy of S.cerevisiae. Here we show the other eight structural features of a 3 kb region around CHA1 promoter on chromosome 3, including three positive features (the first row) and five negative features (the second row). Supplemental Figure S2. The comparison between structural profiles and experimental nucleosome occupancy of S.cerevisiae. Here we show four typical related features of a 3 kb region around HIS3 promoter on chromosome 15, including DNA.

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Additional file 2:

The executable and source codes of DLaNe.

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