Nucleosome formation potential of eukaryotic DNA: calculation and promoters analysis
Nucleosome formation potential of eukaryotic DNA: calculation and promoters analysis
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DOI：
10.1093/bioinformatics/17.11.998
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发表时间：
2001-11-01
期刊：
影响因子：
5.8
通讯作者：
Podkolodny, NL
中科院分区：
文献类型：
--
作者：
Levitsky, VG;Podkolodnaya, OA;Podkolodny, NL
动机：随着已知序列基因数量的快速增长，需要开发用于分类和分析的自动化工具。很明显，核小体包装的真核DNA是非常重要的基因功能。核小体包装密度表征的自动化计算机工具可用于基因调控和基因组注释的研究。结果：开发了一个构建真核生物DNA序列核小体形成势谱的程序。分析了不同功能类型的人类启动子的核小体包装密度。研究发现，在组织特异性基因的启动子中，核小体的形成潜力基本上高于许多组织中表达的基因或管家基因。因此，核小体在启动子区域定位的能力可能是调节基因表达的一个因素。
Motivation: A rapid growth in the number of genes with known sequences calls for developing automated tools for their classification and analysis. It became clear that nucleosome packaging of eukaryotic DNA is very important for gene functioning. Automated computer tools for characterization of nucleosome packaging density could be useful for studying of gene regulation and genome annotation.Results: A program for constructing nucleosome formation potential profiles of eukaryotic DNA sequences was developed. Nucleosome packaging density was analyzed for different functional types of human promoters. It was found that in promoters of tissue-specific genes, the nucleosome formation potential was essentially higher than in genes expressed in many tissues, or housekeeping genes. Hence, capability of nucleosome positioning in the promoter region may serve as a factor regulating gene expression.