Document Detail


Large-scale oscillation of structure-related DNA sequence features in human chromosome 21.
MedLine Citation:
PMID:  17025477     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Human chromosome 21 is the only chromosome in the human genome that exhibits oscillation of the (G+C) content of a cycle length of hundreds kilobases (kb) ( 500 kb near the right telomere). We aim at establishing the existence of a similar periodicity in structure-related sequence features in order to relate this (G+C)% oscillation to other biological phenomena. The following quantities are shown to oscillate with the same 500 kb periodicity in human chromosome 21: binding energy calculated by two sets of dinucleotide-based thermodynamic parameters, AA/TT and AAA/TTT bi- and tri-nucleotide density, 5'-TA-3' dinucleotide density, and signal for 10- or 11-base periodicity of AA/TT or AAA/TTT. These intrinsic quantities are related to structural features of the double helix of DNA molecules, such as base-pair binding, untwisting or unwinding, stiffness, and a putative tendency for nucleosome formation.
Authors:
Wentian Li; Pedro Miramontes
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2006-08-09
Journal Detail:
Title:  Physical review. E, Statistical, nonlinear, and soft matter physics     Volume:  74     ISSN:  1539-3755     ISO Abbreviation:  Phys Rev E Stat Nonlin Soft Matter Phys     Publication Date:  2006 Aug 
Date Detail:
Created Date:  2006-10-09     Completed Date:  2006-12-13     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101136452     Medline TA:  Phys Rev E Stat Nonlin Soft Matter Phys     Country:  United States    
Other Details:
Languages:  eng     Pagination:  021912     Citation Subset:  IM    
Affiliation:
The Robert S. Boas Center for Genomics and Human Genetics, Feinstein Institute for Medical Research, North Shore LIJ Health System, 350 Community Drive, Manhasset, New York 11030, USA. wli@nslij-genetics.org
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MeSH Terms
Descriptor/Qualifier:
Base Composition / genetics*
Base Sequence
Biological Clocks / genetics*
Chromosomes, Human, Pair 21 / chemistry*,  genetics*
DNA / chemistry*,  genetics*
Humans
Molecular Sequence Data
Sequence Analysis, DNA*
Structure-Activity Relationship
Chemical
Reg. No./Substance:
9007-49-2/DNA

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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