Literature DB >> 18445607

nuScore: a web-interface for nucleosome positioning predictions.

Michael Y Tolstorukov1, Vidhu Choudhary, Wilma K Olson, Victor B Zhurkin, Peter J Park.   

Abstract

UNLABELLED: Sequence-directed mapping of nucleosome positions is of major biological interest. Here, we present a web-interface for estimation of the affinity of the histone core to DNA and prediction of nucleosome arrangement on a given sequence. Our approach is based on assessment of the energy cost of imposing the deformations required to wrap DNA around the histone surface. The interface allows the user to specify a number of options such as selecting from several structural templates for threading calculations and adding random sequences to the analysis. AVAILABILITY: The nuScore interface is freely available for use at http://compbio.med.harvard.edu/nuScore. CONTACT: peter_park@harvard.edu; tolstorukov@gmail.com SUPPLEMENTARY INFORMATION: The site contains user manual, description of the methodology and examples.

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Year:  2008        PMID： 18445607      PMCID： PMC3807124          DOI： 10.1093/bioinformatics/btn212

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  17 in total

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  20 in total

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4.  Nucleosome landscape and control of transcription in the human malaria parasite.

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10.  Predicting nucleosome positions on the DNA: combining intrinsic sequence preferences and remodeler activities.

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