Pulling Pinned Polymers and Unzipping DNA
arXiv:cond-mat/0004423 · doi:10.1103/PhysRevLett.85.1572
Abstract
We study a class of micromanipulation experiments, exemplified by the pulling apart of the two strands of double-stranded DNA (dsDNA). When the pulling force is increased to a critical value, an ``unzipping'' transition occurs. For random DNA sequences with short-ranged correlations, we obtain exact results for the number of monomers liberated and the specific heat, including the critical behavior at the transition. Related systems include a random heteropolymer pulled away from an adsorbing surface and a vortex line in a type II superconductor tilted away from a fragmented columnar defect.
4 pages, 1 EPS figure; revised references and very brief discussion of order of the transition added; to appear in Phys. Rev. Lett
Cited by in corpus (96)
- Exceptional Topology of Non-Hermitian Systems
- Strong disorder RG approach of random systems
- Experimental Free Energy Surface Reconstruction From Single-Molecule Force Spectroscopy Using Jarzynski's Equality
- Force and kinetic barriers in unzipping of DNA
- DNA unzipped under a constant force exhibits multiple metastable intermediates
- Single Molecule Statistics and the Polynucleotide Unzipping Transition
- Dynamical scaling of the DNA unzipping transition
- DNA hybridization to mismatched templates: a chip study
- The Local and the Occupation Time of a Particle Diffusing in a Random Medium
- RNA Folding and Large N Matrix Theory
- Measurement of the Phase Diagram of DNA Unzipping in the Temperature- Force Plane
- Dynamics of Molecular Motors and Polymer Translocation with Sequence Heterogeneity
- Force-induced rupture of a DNA duplex
- Phase diagram of force-induced DNA unzipping in exactly solvable models
- Bubble dynamics in DNA
- Force-induced denaturation of RNA
- Quasispecies Theory for Multiple-Peak Fitness Landscapes
- Opening of DNA double strands by helicases. Active versus passive opening
- Complete Phase Diagram of DNA Unzipping: Eye, Y-fork and triple point
- Mechanical denaturation of DNA: existence of a low temperature denaturation
- Statistical Physics of RNA-folding
- Protein-DNA computation by stochastic assembly cascade
- Statistical mechanics of base stacking and pairing in DNA melting
- Localization properties of the anomalous diffusion phase in the directed trap model and in the Sinai diffusion with bias
- Theoretical studies of the kinetics of mechanical unfolding of cross-linked polymer chains and their implications for single molecule pulling experiments
- Inferring DNA sequences from mechanical unzipping: an ideal-case study
- The probability analysis of opening of DNA
- Statistical Mechanics of DNA unzipping under periodic force: Scaling behavior of hysteresis loop
- Exact Asymptotic Results for Persistence in the Sinai Model with Arbitrary Drift
- Effects of Eye-phase in DNA unzipping
- Bubble Relaxation Dynamics in Double-Stranded DNA
- Scaling in DNA unzipping models: denaturated loops and end-segments as branches of a block copolymer network
- Pause Point Spectra in DNA Constant-Force Unzipping
- Force induced triple point for interacting polymers
- A steepest descent calculation of RNA pseudoknots
- The Reversible Phase Transition of DNA-Linked Colloidal Gold Assemblies
- Unzipping Dynamics of Long DNAs
- High-Fidelity DNA Sensing by Protein Binding Fluctuations
- Fluid adsorption near an apex: Covariance between complete and critical wetting
- Shear Unzipping of DNA
- Hysteresis and nonequilibrium work theorem for DNA unzipping
- Effects of mechanical strain on thermal denaturation of DNA
- The non-Hermitian skin effect: A perspective
- Numerical study on a disordered model for DNA denaturation transition
- Inferring DNA sequences from mechanical unzipping data: the large-bandwidth case
- Sinai model in presence of dilute absorbers
- Random walks and polymers in the presence of quenched disorder
- Phase diagram of mechanically stretched DNA: The salt effect
- Theoretical and Experimental Investigations of DNA Open States
- Dynamical phase transition of a periodically driven DNA
- Unzipping of DNA with correlated base-sequence
- Dynamics of force-induced DNA slippage
- Numerical evidence for relevance of disorder in a Poland-Scheraga DNA denaturation model with self-avoidance: Scaling behavior of average quantities
- Force induced stretched state: Effects of temperature
- Anomalous Critical Slowdown at a First Order Phase Transition in Single Polymer Chains
- Unzipping DNA by force: thermodynamics and finite size behaviour
- Unzipping DNA by a periodic force: Hysteresis loop area and its scaling
- DNA sequence from the unzipping force? : one mutation problem
- Helicase activity on DNA as a propagating front
- Anomalous zipping dynamics and forced polymer translocation
- Force induced melting of the constrained DNA
- Can a double stranded DNA be unzipped by pulling a single strand?: Phases of adsorbed DNA
- Reunion of random walkers with a long range interaction: applications to polymers and quantum mechanics
- Local Cooperativity Mechanism in the DNA Melting Transition
- Effect of external stress on the thermal melting of DNA
- Force-induced unfolding of a homopolymer on fractal lattice: exact results vs. mean field predictions
- Unzipping DNA by a periodic force: Hysteresis loops, Dynamical order parameter, Correlations and Equilibrium curves
- Free energy landscape and characteristic forces for the initiation of DNA unzipping
- Phase diagram for unzipping DNA with long-range interactions
- Unzipping Vortices in Type-II Superconductors
- Spin-oscillator model for DNA/RNA unzipping by mechanical force
- DNA unzipping and the unbinding of directed polymers in a random media
- Unzipping of two random heteropolymers: Ground state energy and finite size effects
- Dynamics and energetics of a molecular zipper under external driving
- PT-Symmetry Breaking Transitions in Polymeric Systems
- Percolation, sliding, localization and relaxation in topologically closed circuits
- Effect of genome sequence on the force-induced unzipping of a DNA molecule
- Unfolding and unzipping of single-stranded DNA by stretching
- Can re-entrance be observed in force induced transitions?
- Exact solution of two friendly walks above a sticky wall with single and double interactions
- Unzipping of a double-stranded block copolymer DNA by a periodic force
- Unzipping flux lines from extended defects in type-II superconductors
- Mapping between the order of thermal denaturation and the shape of the critical line of mechanical unzipping in 1-dimensional DNA models
- The relaxation rate of a stochastic spreading process in a closed ring
- Hysteresis loop area scaling exponents in DNA unzipping by a periodic force: A Langevin dynamics simulation study
- First passage time distribution for a random walker on a random forcing energy landscape
- Quantum stochastic transport along chains
- Forest-Fire Model with Resistant Trees
- Force Induced Unzipping of DNA with Long Range Correlated Noise
- DNA Unzipping Transition
- Exact solutions of directed walk models of polymeric zipping with pulling in two and three dimensions
- From steady-state TASEP model with open boundaries to 1D Ising model at negative fugacity
- Confining multiple polymers between sticky walls: a directed walk model of two polymers
- Non-Hermitian magnetic moment
- On the Selection and Evolution of Regulatory DNA Motifs
- Ma-Dasgupta renormalization studies of various disordered systems