Accurate Sequence-Dependent Coarse-Grained Model for Conformational and Elastic Properties of Double-Stranded DNA-Reference-Cited by-同舟云学术

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Accurate Sequence-Dependent Coarse-Grained Model for Conformational and Elastic Properties of Double-Stranded DNA

Published:2022-04-08 Issue:5 Volume:18 Page:3239-3256
ISSN:1549-9618
Container-title:Journal of Chemical Theory and Computation
language:en
Short-container-title:J. Chem. Theory Comput.

Author:

Assenza Salvatore^ORCID,Pérez Rubén^ORCID

Funder

Ministerio de Ciencia e Innovaci?n

Ministerio de Econom?a y Competitividad

?la Caixa? Foundation

H2020 Marie Sklodowska-Curie Actions

Publisher

American Chemical Society (ACS)

Subject

Physical and Theoretical Chemistry,Computer Science Applications

Link

https://pubs.acs.org/doi/pdf/10.1021/acs.jctc.2c00138

Reference98 articles.

1. Origins of Specificity in Protein-DNA Recognition

2. The role of DNA shape in protein–DNA recognition

3. Poly(dA:dT) tracts: major determinants of nucleosome organization

4. The unique structure of A-tracts and intrinsic DNA bending

5. Comparison of DNA decatenation by Escherichia coli topoisomerase IV and topoisomerase III: implications for non-equilibrium topology simplification

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1. Lipidic drug delivery systems are responsive to the human microbiome;Journal of Colloid and Interface Science;2025-01

2. Mechanical response of double-stranded DNA: Bend, twist, and overwind;The Journal of Chemical Physics;2024-08-23

3. CGeNArate: a sequence-dependent coarse-grained model of DNA for accurate atomistic MD simulations of kb-long duplexes;Nucleic Acids Research;2024-05-30

4. Skipping events impose repeated binding attempts: profound kinetic implications of protein–DNA conformational changes;Nucleic Acids Research;2024-05-08

5. Insights into elastic properties of coarse-grained DNA models: q-stiffness of cgDNA vs cgDNA+;The Journal of Chemical Physics;2024-04-09

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