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Nucleic Acids Research 2005 33(Database Issue):D67-D70; doi:10.1093/nar/gki049
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Nucleic Acids Research, 2005, Vol. 33, Database issue D67-D70
© 2005, the authors
Nucleic Acids Research, Vol. 33, Database issue © Oxford University Press 2005; all rights reserved

NPRD: Nucleosome Positioning Region Database

Victor G. Levitsky1,2,*, Aleksey V. Katokhin1, Olga A. Podkolodnaya1, Dagmara P. Furman1 and Nikolay A. Kolchanov1,2

1 Institute of Cytology and Genetics SB RAS, prosp. Lavrentieva 10, Novosibirsk 630090, Russia and 2 Novosibirsk State University, ul. Pirogova 2, Novosibirsk 630090, Russia

* To whom correspondence should be addressed. Tel: +7 3832 332971; Fax: +7 3832 331278; Email: levitsky{at}bionet.nsc.ru

Received August 13, 2004; Revised and Accepted September 30, 2004

Nucleosome Positioning Region Database (NPRD), which is compiling the available experimental data on locations and characteristics of nucleosome formation sites (NFSs), is the first curated NFS-oriented database. The object of the database is a single NFS described in an individual entry. When annotating results of NFS experimental mapping, we pay special attention to several important functional characteristics, such as the relationship between type of gene activity and nucleosome positioning, the influence of non-histone proteins on nucleosome formation, type of the variant of nucleosome positioning (translational or rotational), indication of tissue types and states of cell activity, description of experimental methods used and accuracy of nucleosome position determination, and the results of applying theoretical and computer methods to the analysis of contextual and conformational DNA properties. At present, the NPRD database contains 438 entries and integrates the data described in 124 original papers. The database URL: http://srs6.bionet.nsc.ru/srs6/. Then click the button ‘Databank’ and open the link NUCLEOSOME.

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