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- W2095759849 startingPage "e0143760" @default.
- W2095759849 abstract "Simple elastic network models of DNA were developed to reveal the structure-dynamics relationships for several nucleotide sequences. First, we propose a simple all-atom elastic network model of DNA that can explain the profiles of temperature factors for several crystal structures of DNA. Second, we propose a coarse-grained elastic network model of DNA, where each nucleotide is described only by one node. This model could effectively reproduce the detailed dynamics obtained with the all-atom elastic network model according to the sequence-dependent geometry. Through normal-mode analysis for the coarse-grained elastic network model, we exhaustively analyzed the dynamic features of a large number of long DNA sequences, approximately ∼150 bp in length. These analyses revealed positive correlations between the nucleosome-forming abilities and the inter-strand fluctuation strength of double-stranded DNA for several DNA sequences." @default.
- W2095759849 created "2016-06-24" @default.
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- W2095759849 date "2015-12-01" @default.
- W2095759849 modified "2023-09-27" @default.
- W2095759849 title "Simple Elastic Network Models for Exhaustive Analysis of Long Double-Stranded DNA Dynamics with Sequence Geometry Dependence" @default.
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- W2095759849 doi "https://doi.org/10.1371/journal.pone.0143760" @default.
- W2095759849 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/4666469" @default.
- W2095759849 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/26624614" @default.
- W2095759849 hasPublicationYear "2015" @default.
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