DNA motifs and sequence periodicities |
| |
Authors: | Kumar Lokesh Futschik Matthias Herzel Hanspeter |
| |
Institution: | Institute for Theoretical Biology, Humboldt University, Invalidenstr. 43, 10115 Berlin, Germany. |
| |
Abstract: | Genomic DNA sequences contain a wealth of information about the bendability and curvature of the DNA molecule. For example, the well-known 10-11 bp periodicities within genomes can be attributed to supercoiled structures or wrapping around nucleosomes. Such periodic signals have previously been examined mainly based on mono- or dinucleotide correlations. In this study, we generalize this approach and analyze correlation functions of longer motifs such as tetramers or poly(A) sequences. Periodically placed motifs may indicate regular protein binding or curvature signals. We detected various periodic signals e.g. strong 10-11 bp oscillations of periodically placed poly(A), poly(T) or poly(W) stretches. These observations lead to a new view on the intensively studied 10-11 bp periodicities. |
| |
Keywords: | |
本文献已被 PubMed 等数据库收录! |
|