Abstract:
: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.
journal_name
Genome Resjournal_title
Genome researchauthors
Greenbaum JA,Pang B,Tullius TDdoi
10.1101/gr.6073107subject
Has Abstractpub_date
2007-06-01 00:00:00pages
947-53issue
6eissn
1088-9051issn
1549-5469pii
17/6/947journal_volume
17pub_type
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