ArticleBiophysical journal2002
Sequence-dependent DNA curvature and flexibility from scanning force microscopy images.
Article in Biophysical journal, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Understanding the Mechanism of Bent DNA Amplifying Sensors Using All-Atom Molecular Dynamics Simulations.Biosensors · 2025Article
- How acidic amino acid residues facilitate DNA target site selection.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Epigenetic Marks and Variation of Sequence-Based Information Along Genomic Regions Are Predictive of Recombination Hot/Cold Spots inFrontiers in genetics · 2021Article
- Bent DNA Bows as Sensing Amplifiers for Detecting DNA-Interacting Salts and Molecules.Sensors (Basel, Switzerland) · 2020Article
- Architectural Organization of Dinoflagellate Liquid Crystalline Chromosomes.Microorganisms · 2019Review
- An Evolutionary/Biochemical Connection between Promoter- and Primer-Dependent Polymerases Revealed by Systematic Evolution of Ligands by Exponential Enrichment.Journal of bacteriology · 2018Article
- Symmetric curvature descriptors for label-free analysis of DNA.Scientific reports · 2014Article
- Effect of Bending Rigidity on the Knotting of a Polymer under Tension.ACS macro letters · 2012Article
- Label-free, atomic force microscopy-based mapping of DNA intrinsic curvature for the nanoscale comparative analysis of bent duplexes.Nucleic acids research · 2012Article
- DNA condensation by TmHU studied by optical tweezers, AFM and molecular dynamics simulations.Journal of biological physics · 2011Article
- Linear relationship between deformability and thermal stability of 2'-O-modified RNA hetero duplexes.The journal of physical chemistry. B · 2010Article
- DNA curvature and flexibility in vitro and in vivo.Quarterly reviews of biophysics · 2010Review
- Local and global effects of strong DNA bending induced during molecular dynamics simulations.Nucleic acids research · 2009Article
- Salerno's model of DNA re-analysed: could breather solitons have biological significance?Journal of biological physics · 2006Article
- Fine mapping of inherent flexibility variation along DNA molecules: validation by atomic force microscopy (AFM) in buffer.Molecular genetics and genomics : MGG · 2005Article
- Common patterns in type II restriction enzyme binding sites.Nucleic acids research · 2005Article
- Recognition of the DNA sequence by an inorganic crystal surface.Proceedings of the National Academy of Sciences of the United States of America · 2002Article
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5 authors.
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Abstract
This paper reports a study of the sequence-dependent DNA curvature and flexibility based on scanning force microscopy (SFM) images. We used a palindromic dimer of a 1878-bp pBR322 fragment and collected a large pool of SFM images. The curvature of each imaged chain was measured in modulus and direction. It was found that the ensemble curvature modulus does not allow the separation of static and dynamic contributions to the curvature, whereas the curvature, when its direction in the two dimensions is taken into account, permits the direct separation of the intrinsic curvature contributions static and dynamic contributions. The palindromic symmetry also acted as an internal gauge of the validity of the SFM images statistical analysis. DNA static curvature resulted in good agreement with the predicted sequence-dependent intrinsic curvature. Furthermore, DNA sequence-dependent flexibility was found to correlate with the occurrence of A.T-rich dinucleotide steps along the chain and, in general, with the normalized basepair stacking energy distribution.
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