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Statistical mechanics of supercoiled dna

WebStatistical mechanics of coil-hairpin transition in a single stranded DNA oligomer arXiv:cond-mat/0701368v1 [cond-mat.stat-mech] 16 Jan 2007 Sanjay Kumar, Debaprasad Giri† and Yashwant Singh Department of Physics, Banaras Hindu University, Varanasi 221 005, India, † Physics Section, MMV, Banaras Hindu University, Varanasi 221 005, India. WebSiggia, ED & Marko, JF 1996, Statistical Mechanics of Supercoiled DNA: The IMA Volumes in Mathematics and Its Application. in JP Mesirov, K Schulten & DW Sumners (eds), Mathematical Approaches to Biomolecular Structure and Dynamics: The IMA Volumes in Mathematics and Its Application. Springer, New York, pp. 115-6.

DNA supercoiling and its role in DNA decatenation and unknotting

WebSep 1, 1995 · Statistical mechanics of supercoiled DNA J. F. Marko and E. D. Siggia Phys. Rev. E 52, 2912 – Published 1 September 1995 More PDF Export Citation Abstract The two strands of a closed circular DNA molecule possess as a topological invariant their linking … WebDec 1, 1994 · At high salt, the supercoiled chain is quite compact but fairly rigid, whereas at low salt the DNA is loosely coiled but more dynamic. Especially notable at low salt are the large-scale opening and closing of the chain as a whole and the rapid "slithering"of individual residues past one another. black braids with grey https://qtproductsdirect.com

How, Why and When Tsallis Statistical Mechanics Provides …

WebJul 22, 1994 · Supercoil reorganization by means of slithering (reptation) of the DNA along the supercoil is argued to be a slow process. Extension of supercoiled DNA by an applied … WebMar 10, 2024 · Z-Hunt predicts the propensity of Z-DNA formation using statistical mechanics to calculate the potential of each fixed DNA region to form a left-handed helix based on empirically ... Baranello L, Levens D, Gupta A, Kouzine F (2012) The importance of being supercoiled: how DNA mechanics regulate dynamic processes. Biochim Biophys … WebIn addition to equilibrium supercoil structure, we discuss supercoil bending and branching and show how at large scales supercoiled DNA becomes a branched polymer. The … galileo master certificate worth it

Fluctuations and Supercoiling of DNA Science

Category:Statistical mechanical theory for the plectonemic DNA supercoil ...

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Statistical mechanics of supercoiled dna

Detection of Z-DNA Structures in Supercoiled Genome

WebThe limit of validity of ordinary statistical mechanics and the pertinence of Tsallis statistics beyond it is explained considering the most probable evolution of complex systems processes. To this purpose we employ a dissipative Landau–Ginzburg kinetic equation that becomes a generic one-dimensional nonlinear iteration map for discrete … WebIn addition to equilibrium supercoil structure, we discuss supercoil bending and branching and show how at large scales supercoiled DNA becomes a branched polymer. The …

Statistical mechanics of supercoiled dna

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WebAug 1, 2024 · DNA supercoiling, the under or overwinding of DNA, is a key physical mechanism both participating to compaction of bacterial genomes and making genomic … WebEquilibrium fluctuations of DNA plectonemes Plectonemes are intertwined helically looped domains which form when a DNA molecule is supercoiled, i.e., over- or underwound. They are ubiquitous in cellular DNA, and their physical properties have...

WebWe review the current understanding of the mechanics of DNA and DNA-protein complexes, from scales of base pairs up to whole chromosomes. Mechanics of the double helix as revealed by single-molecule experiments will be described, with an emphasis on the role of polymer statistical mechanics. WebJan 1, 2009 · Analytical results for DNA extension and torque are presented, and effects of anharmonicities in the plectonemic free energy are described. An application of the theory …

WebDec 15, 1991 · Statistical mechanical theory for the plectonemic DNA supercoil Full Record Related Research Abstract The eigenfunctions for circular boundary conditions of the … WebDNA base breathing in supercoiled DNA during atomistic MD simulations. At the lower torsional stress of ΔLkLk ≈ −1 (see Supplementary Data), however, the oxDNA simulations show that the average denaturation probability is reduced by a factor of 1.6 for each of the small circles (although intuitively a greater reduction might be expected ...

WebAbstract. We review the history of DNA mechanics and its analysis. We evaluate several methods to analyze the structures of superhelical DNA molecules, each predicated on the assumption that DNA can be modeled with reasonable accuracy as an extended, linearly elastic polymer. Three main approaches are considered: mechanical equilibrium methods ...

WebDNA supercoiling is important for DNA packaging within all cells. Because the length of DNA can be thousands of times that of a cell, packaging this genetic material into the cell or … galileo mathematics is the languageWebDec 31, 1996 · Statistical mechanics of supercoiled DNA Full Record Related Research Abstract The conformation of long supercoiled DNA loops under near physiological … galileo mediathek heuteWebDec 21, 2009 · Negative supercoiling has an important biological function of facilitating local- and global-strand separation of DNA molecules such as these occurring during transcription and replication, respectively (7– 9).Figure 2 explains why this is the case. Strand separation relaxes the torsional stress in negatively supercoiled DNA ().Therefore, … galileo medical ft myers