General Physiology and Biophysics Vol.39, No.3, p.269

General Physiology and Biophysics Vol.39, No.3, p.269–276, 2020

Quarterly, 80 pp. per issue
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ISSN 1338-4325 (online)

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General Physiology and Biophysics Vol.39, No.3, p.269–276, 2020
Title: Nucleosome sliding mechanism based on the potential energy of sequence
Author: Hu Meng, Hong Li, Zhenhua Yang, Yangming Si

Abstract: Nucleosome sliding and nucleosome digestion are two main ways for regulating gene transcription. We constructed three characteristic parameters (CP) based on the information of CG0, CG1 and CG2 motifs, and used these parameters to analyze the sliding trend of −1 and +1 nucleosomes around TSS of genes with NFR in yeast. The CP distribution was used to describe the features of nucleosome sequences, and the slope of fit line of CP distribution curve was used to represent the potential energy of nucleosome sequences. Results show that nucleosome sliding trend could be reflected by CG0 and CG2 CP distributions, and CG0 CP distribution has a good correlation with nucleosome sliding trend. In addition, the sliding trend of nucleosomes is different in various expression level genes. For high expression gene, sliding trend of −1 nucleosome is weaker and that of +1 nucleosome is stronger.

Keywords: Sliding trend, Transcription regulation, Sequence characteristic, k-mer, CG dinucleotide
	Published online: 10-Jun-2020
Year: 2020, Volume: 39, Issue: 3	Page From: 269, Page To: 276
doi:10.4149/gpb_2020002
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