title: Nucleosome formation potential of eukaryotic DNA: calculation and promoters analysis.
abstract: BACKGROUND
  A rapid growth in the number of genes with known sequences calls for developing automated tools for their classification and analysis. It became clear that nucleosome packaging of eukaryotic DNA is very important for gene functioning. Automated computer tools for characterization of nucleosome packaging density could be useful for studying of gene regulation and genome annotation.
  
  
  RESULTS
  A program for constructing nucleosome formation potential profiles of eukaryotic DNA sequences was developed. Nucleosome packaging density was analyzed for different functional types of human promoters. It was found that in promoters of tissue-specific genes, the nucleosome formation potential was essentially higher than in genes expressed in many tissues, or housekeeping genes. Hence, capability of nucleosome positioning in the promoter region may serve as a factor regulating gene expression.
  
  
  BACKGROUND
  The program for nucleosome sites recognition is included into the GeneExpress system; section 'DNA Nucleosomal Organization', http://wwwmgs.bionet.nsc.ru/mgs/programs/recon/.
authors.affiliation: Laboratory of Theoretical Genetics, Institute of Cytology & Genetics, 630090, Lavrentiev Ave. 10, Novosibirsk, Russia. levitsky@bionet.nsc.ru
authors.forename: V G
authors.initials: VG
authors.lastname: Levitsky
authors.forename: O A
authors.initials: OA
authors.lastname: Podkolodnaya
authors.forename: N A
authors.initials: NA
authors.lastname: Kolchanov
authors.forename: N L
authors.initials: NL
authors.lastname: Podkolodny
mesh_terms: D000465:Algorithms; D001482:Base Composition; D019295:Computational Biology; D004247:DNA / Q000737:chemistry / Q000235:genetics*; D005057:Eukaryotic Cells; D015870:Gene Expression; D006657:Histones / Q000737:chemistry / Q000235:genetics; D009707:Nucleosomes / Q000235:genetics*; D011401:Promoter Regions, Genetic; D012984:Software
chemical_list: D006657:Histones; D009707:Nucleosomes; D004247:DNA