Dynamical scaling of the DNA unzipping transition
arXiv:cond-mat/0103142 · doi:10.1103/PhysRevLett.88.028102
Abstract
We report studies of the equilibrium and the dynamics of a general set of lattice models which capture the essence of the force-induced or mechanical DNA unzipping transition. Besides yielding the whole equilibrium phase diagram in the force vs temperature plane, which reveals the presence of an interesting re-entrant unzipping transition for low T, these models enable us to characterize the dynamics of the process starting from a non-equilibrium initial condition. The thermal melting of the DNA strands displays a model dependent time evolution. On the contrary, our results suggest that the dynamical mechanism for the unzipping by force is very robust and the scaling behaviour does not depend on the details of the description we adopt.
6 pages, 4 figures, A shorter version of this paper appeared in Phys. Rev. Lett. 88, 028102 (2002)
References in corpus (2)
Cited by in corpus (79)
- Single-molecule experiments in biological physics: methods and applications
- Geometry of quantum phase transitions
- DNA unzipped under a constant force exhibits multiple metastable intermediates
- Single Molecule Statistics and the Polynucleotide Unzipping Transition
- Measurement of the Phase Diagram of DNA Unzipping in the Temperature- Force Plane
- Force-induced rupture of a DNA duplex
- Poland-Scheraga models and the DNA denaturation transition
- Flory theory for Polymers
- Stretching of a polymer below the Theta point
- Fisher information approach to non-equilibrium phase transitions in quantum XXZ spin chain with boundary noise
- Force-induced desorption of a linear polymer chain adsorbed on an attractive surface
- Complete Phase Diagram of DNA Unzipping: Eye, Y-fork and triple point
- Statistical Physics of RNA-folding
- Statistical Theory of Force Induced Unzipping of DNA
- Statistical mechanics of base stacking and pairing in DNA melting
- Inferring DNA sequences from mechanical unzipping: an ideal-case study
- Mechanical unfolding of directed polymers in a poor solvent: novel critical exponents
- Statistical Mechanics of DNA unzipping under periodic force: Scaling behavior of hysteresis loop
- Effects of Eye-phase in DNA unzipping
- Effects of Molecular Crowding on stretching of polymers in poor solvent
- Role of loop entropy in the force induced melting of DNA hairpin
- Force induced triple point for interacting polymers
- Pause Point Spectra in DNA Constant-Force Unzipping
- Polymer Detachment Kinetics from Adsorbing Surface: Theory, Simulation and Similarity to Infiltration into Porous Medium
- Hysteresis and nonequilibrium work theorem for DNA unzipping
- Randomly forced DNA
- Forced desorption of semiflexible polymers, adsorbed and driven by molecular motors
- Inferring DNA sequences from mechanical unzipping data: the large-bandwidth case
- Melting of persistent double-stranded polymers
- Theoretical and Experimental Investigations of DNA Open States
- When a DNA Triple helix melts: An analog of the Efimov state
- Unzipping of DNA with correlated base-sequence
- Scaling of hysteresis loop of interacting polymers under a periodic force
- Anomalous Critical Slowdown at a First Order Phase Transition in Single Polymer Chains
- DNA sequence from the unzipping force? : one mutation problem
- Force induced stretched state: Effects of temperature
- Helicase on DNA: A Phase coexistence based mechanism
- Anomalous zipping dynamics and forced polymer translocation
- Unzipping DNA by a periodic force: Hysteresis loop area and its scaling
- Helicase activity on DNA as a propagating front
- Unzipping DNA by force: thermodynamics and finite size behaviour
- Force induced melting of the constrained DNA
- Manipulating a single adsorbed DNA for a critical endpoint
- Can a double stranded DNA be unzipped by pulling a single strand?: Phases of adsorbed DNA
- Local Cooperativity Mechanism in the DNA Melting Transition
- Thermodynamic relations for DNA phase transitions
- Unwinding dynamics of double-stranded polymers
- 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
- Multiple timescales in a model for DNA denaturation dynamics
- Equilibrium winding angle of a polymer around a bar
- Free energy landscape and characteristic forces for the initiation of DNA unzipping
- Spin-oscillator model for DNA/RNA unzipping by mechanical force
- Force induced unfolding of bio-polymers in a cellular environment: A model study
- Polymers in crowded environment under stretching force: globule-coil transitions
- Phase diagram for unzipping DNA with long-range interactions
- Melting behavior and different bound states in three-stranded DNA models
- Unzipping an adsorbed polymer in a dirty or random environment
- Unzipping of two random heteropolymers: Ground state energy and finite size effects
- Rigidity of Melting DNA
- Unzipping of a double-stranded block copolymer DNA by a periodic force
- Can re-entrance be observed in force induced transitions?
- Exact solution of two friendly walks above a sticky wall with single and double interactions
- Dynamics of pulled desorption with effects of excluded volume interaction: The p-Laplacian diffusion equation and its exact solution
- Mapping between the order of thermal denaturation and the shape of the critical line of mechanical unzipping in 1-dimensional DNA models
- TYPE II DNA: when the interfacial energy becomes negative
- Hysteresis loop area scaling exponents in DNA unzipping by a periodic force: A Langevin dynamics simulation study
- Force Induced Unzipping of DNA with Long Range Correlated Noise
- Forest-Fire Model with Resistant Trees
- Reentrant condensation transition in a two species driven diffusive system
- On the thermodynamics of DNA in the Peyrard-Bishop-Dauxois model
- Theta-polymers in crowded media under the stretching force
- Hotter isn't faster for a melting RNA hairpin
- DNA Unzipping Transition
- On the number of contacts of a floating polymer chain cross-linked with a surface adsorbed chain on fractal structures
- Stochastic resonance in a model of a periodically driven DNA : Multiple transitions, scaling and sequence dependence
- Critical behavior of interacting two-polymer system in a fractal solvent: an exact renormalization group approach
- Exact solutions of directed walk models of polymeric zipping with pulling in two and three dimensions
- Confining multiple polymers between sticky walls: a directed walk model of two polymers