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Functional Implications of Local DNA Structures in Regulatory Motifs
Author
Source
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-6, 6 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-05-14
Country of Publication
Egypt
No. of Pages
6
Main Subjects
Medicine
Information Technology and Computer Science
Abstract EN
The three-dimensional structure of DNA has been proposed to be a major determinant for functional transcription factors (TFs) and DNA interaction.
Here, we use hydroxyl radical cleavage pattern as a measure of local DNA structure.
We compared the conservation between DNA sequence and structure in terms of information content and attempted to assess the functional implications of DNA structures in regulatory motifs.
We used statistical methods to evaluate the structural divergence of substituting a single position within a binding site and applied them to a collection of putative regulatory motifs.
The following are our major observations: (i) we observed more information in structural alignment than in the corresponding sequence alignment for most of the transcriptional factors; (ii) for each TF, majority of positions have more information in the structural alignment as compared to the sequence alignment; (iii) we further defined a DNA structural divergence score (SD score) for each wild-type and mutant pair that is distinguished by single-base mutation.
The SD score for benign mutations is significantly lower than that of switch mutations.
This indicates structural conservation is also important for TFBS to be functional and DNA structures will provide previously unappreciated information for TF to realize the binding specificity.
American Psychological Association (APA)
Xiang, Qian. 2013. Functional Implications of Local DNA Structures in Regulatory Motifs. The Scientific World Journal،Vol. 2013, no. 2013, pp.1-6.
https://search.emarefa.net/detail/BIM-1033503
Modern Language Association (MLA)
Xiang, Qian. Functional Implications of Local DNA Structures in Regulatory Motifs. The Scientific World Journal No. 2013 (2013), pp.1-6.
https://search.emarefa.net/detail/BIM-1033503
American Medical Association (AMA)
Xiang, Qian. Functional Implications of Local DNA Structures in Regulatory Motifs. The Scientific World Journal. 2013. Vol. 2013, no. 2013, pp.1-6.
https://search.emarefa.net/detail/BIM-1033503
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1033503