Construction of a genome-scale structural map at single-nucleotide resolution

被引：54

作者：

Greenbaum, Jason A.

Pang, Bo

Tullius, Thomas D. ^{[1
]}

机构：

[1] Boston Univ, Program Bioinformat, Boston, MA 02215 USA

[2] Boston Univ, Dept Chem, Boston, MA 02215 USA

来源：

GENOME RESEARCH | 2007年 / 17卷 / 06期

关键词：

D O I：

10.1101/gr.6073107

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Few methods are available for mapping the local structure of DNA throughout a genome. The hydroxyl radical cleavage pattern is a measure of the local variation in solvent-accessible surface area of duplex DNA, and thus provides information on the local shape and structure of DNA. We report the construction of a relational database, ORChID ( OH Radical Cleavage Intensity Database), that contains extensive hydroxyl radical cleavage data produced from two DNA libraries. We have used the ORChID database to develop a set of algorithms that are capable of predicting the hydroxyl radical cleavage pattern of a DNA sequence of essentially any length, to high accuracy. We have used the prediction algorithm to produce a structural map of the 30 Mb of the ENCODE regions of the human genome.

引用

页码：947 / 953

页数：7

共 46 条

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