# Uniform description of polymer ejection dynamics from capsid with and without hydrodynamics.

@article{Piili2017UniformDO, title={Uniform description of polymer ejection dynamics from capsid with and without hydrodynamics.}, author={Joonas Piili and Pauli Suhonen and Riku Linna}, journal={Physical review. E}, year={2017}, volume={95 5-1}, pages={ 052418 } }

We use stochastic rotation dynamics (SRD) to examine the dynamics of the ejection of an initially strongly confined flexible polymer from a spherical capsid with and without hydrodynamics. The results obtained using stochastic rotation dynamics (SRD) are compared to similar Langevin simulations. Inclusion of hydrodynamic modes speeds up the ejection but also allows the part of the polymer outside the capsid to expand closer to equilibrium. This shows as higher values of radius of gyration when…

## 9 Citations

### Scaling Behaviors of a Polymer Ejected from a Cavity through a Small Pore.

- PhysicsPhysical review letters
- 2019

The evolution of m is shown to be well described by the scaling theory and the ejection time exhibits two proper scaling behaviors: N^{(2/3ν)+y_{1}}ϕ_{0}^{-(2/ 3ν)} and N^{2+y_{2}} under the large and small ϕ_0} or N conditions, respectively.

### Dynamics of driven translocation of semiflexible polymers.

- Materials SciencePhysical review. E
- 2018

It is shown that for realistic f_{d} translocation dynamics is to a large extent, but not completely, determined by the polymer's elastic length measured in number of Kuhn segments, which is elastically so short that the finite-length dynamics outlined here applies.

### Quantification of tension to explain bias dependence of driven polymer translocation dynamics.

- Materials SciencePhysical review. E
- 2017

The results corroborate the theoretical prediction by Sakaue's theory that there should not be bias dependence of β for asymptotically long polymers and show that monomer crowding at the pore exit cannot have a measurable effect on translocation dynamics under realistic conditions.

### Scaling Theory of a Polymer Ejecting from a Cavity into a Semi-Space

- PhysicsPolymers
- 2020

A two-stage model developed in order to understand the scaling behaviors of single polymers ejecting from a spherical cavity through a nanopore suggests the existence of a pre-stage that can be explained by using the concept of a classical nucleation theory.

### Diffusion of a Ring Threaded on a Linear Chain

- PhysicsChinese Journal of Polymer Science
- 2020

A mesoscopic simulation is applied to investigate the effects of hydrodynamic interactions and axial chains on the dynamics of threaded rings. The hydrodynamic interactions significantly speed up the…

### Polymer translocation into cavities: Effects of confinement geometry, crowding, and bending rigidity on the free energy.

- PhysicsPhysical review. E
- 2019

This work describes the confinement free energy for a flexible polymer in cavities with constant cross-sectional area A for various cavity shapes (cylindrical, rectangular, and triangular) and examines the effects of crowding agents inside the cavity.

### E 97 , 062413 ( 2018 ) Dynamics of driven translocation of semiflexible polymers

- Medicine
- 2018

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### Rigidity-induced scale invariance in polymer ejection from capsid.

- Materials SciencePhysical review. E
- 2017

It is found that, unlike for fully flexible polymers, for semiflexible polymers the force measured at the pore does not show a direct relation to the instantaneous ejection velocity.

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