Journal Article

FineStr: a web server for single-base-resolution nucleosome positioning

Idan Gabdank, Danny Barash and Edward N. Trifonov

in Bioinformatics

Volume 26, issue 6, pages 845-846
Published in print March 2010 | ISSN: 1367-4803
Published online January 2010 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btq030
FineStr: a web server for single-base-resolution nucleosome positioning

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Summary: The DNA in eukaryotic cells is packed into the chromatin that is composed of nucleosomes. Positioning of the nucleosome core particles on the sequence is a problem of great interest because of the role nucleosomes play in different cellular processes including gene regulation.

Using the sequence structure of 10.4 base DNA repeat presented in our previous works and nucleosome core DNA sequences database, we have derived the complete nucleosome DNA bendability matrix of Caenorhabditis elegans.

We have developed a web server named FineStr that allows users to upload genomic sequences in FASTA format and to perform a single-base-resolution nucleosome mapping on them.

Availability: FineStr server is freely available for use on the web at http:/www.cs.bgu.ac.il/~nucleom. The site contains a help file with explanation regarding the exact usage.

Contact: gabdank@cs.bgu.ac.il

Journal Article.  1192 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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