Monte Carlo simulation on the diffusion of polymer in narrow periodical channels

2017 ◽  
Vol 31 (21) ◽  
pp. 1750144 ◽  
Author(s):  
Ying-Cai Chen ◽  
Yan-Li Zhou ◽  
Chao Wang
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Diffusion Process ◽  
Energy Landscape ◽  
Diffusion Constant ◽  
Channel Interaction ◽  
Physical Mechanisms ◽  
Part Formula ◽  
Projected Length ◽  
Long Time

Diffusion of polymer in narrow periodical channels, patterned alternately into part [Formula: see text] and part [Formula: see text] with the same length [Formula: see text], was studied by using Monte Carlo simulation. The interaction between polymer and channel [Formula: see text] is purely repulsive, while that between polymer and channel [Formula: see text] is attractive. Results show that the diffusion of polymer is remarkably affected by the periodicity of channel, and the diffusion constant [Formula: see text] changes periodically with the polymer length [Formula: see text]. At the peaks of [Formula: see text], the projected length of polymer along the channel is an even multiple of [Formula: see text], and the diffusion of polymer in periodical channel is nearly the same as that of polymer in homogeneous channel. While at the valleys of [Formula: see text], the projected length of polymer is an odd multiple of [Formula: see text], and polymer is in a trapped state for a long time and it rapidly jumps to other trapped regions during the diffusion process. The physical mechanisms are discussed from the view of polymer–channel interaction energy landscape.

scholarly journals Insight into the unwrapping of the dinucleosome

Soft Matter ◽  
2020 ◽  
Vol 16 (20) ◽  
pp. 4806-4813
Author(s):  
Fatemeh Khodabandeh ◽  
Hashem Fatemi ◽  
Farshid Mohammad-Rafiee
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Energy Landscape ◽  
Dynamical Features ◽  
Insight Into

The energy landscape and configurations of dinucleosome in different unwrapped states are studied. The dynamical Monte-Carlo simulation demonstrates dynamical features such as the unwrapping force for partial/full wrapping processes.

THE INFLUENCE OF A CRITICAL SIZE ON THE SCALING BEHAVIOR OF CLUSTERS COALESCENCE

1999 ◽  
Vol 13 (18) ◽  
pp. 2397-2404 ◽  
Author(s):  
GUOCE ZHUANG ◽  
XIAOBIN ZHU ◽  
WEI WANG
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Cluster Size ◽  
Critical Size ◽  
Simulation Method ◽  
Monte Carlo Simulation Method ◽  
Critical Cluster ◽  
Cluster Aggregation ◽  
Long Time ◽  
Average Size

By introducing a critical cluster size N c , the irreversible and reversible cluster–cluster aggregation are studied with Monte Carlo simulation method. In a long time limit the average size of cluster <S>∞ reaches its stationary value which depends on the critical size N c and the breakup constant k. Our results indicate that in the presence of critical size the critical exponent y, which is defined as <S(k,∞)>~k-y, increases as the critical size increases and is lower than the value of (α+ξ+2)-1, where the exponents α and ξ associate with the detachment and attachment of clusters.

Monte Carlo Simulation of Diffusion Process on Quasi-Lattice

1992 ◽  
Vol 31 (Part 1, No. 5A) ◽  
pp. 1417-1423 ◽  
Author(s):  
Yasushi Sasajima ◽  
Kazuhiko Sakayori ◽  
Minoru Ichimura ◽  
Mamoru Imabayashi
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Diffusion Process

scholarly journals Monte Carlo Methods and New Jump Diffusion Processes and Their Application in Gold Price

2017 ◽  
Author(s):  
Kutluk Kağan Sümer
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Standard Deviation ◽  
Diffusion Process ◽  
Wiener Process ◽  
Mean Reversion ◽  
Jump Diffusion ◽  
Gold Market ◽  
Jump Diffusion Process ◽  
Standard Deviations

This study aimed to execute Monte Carlo simulation method with Wiener Process, Generalized Wiener Process, Mean Reversion Process and Mean Reversion Jump Diffusion Process and to compare them and then expended with the idea of how to include negative and positive news shocks in the gold market to the Monte Carlo simulation. By enhancing the determination of the 3 standard deviation shocks within the process of Classic Mean Jump Diffusion Process, an enchanted model for the 1,96 and 3 standard deviation shocks were being used and additionally positive and negative shocks were added to the system in a different way. This new Mean Reversion Jump Diffusion Process that have been developed by Sümer, executes Monte Carlo simulation regarding the gold market return with five random variables that are chosen from Poisson distribution and one random variable chosen from the normal distribution. Additionally, by accepting volatilities as outlies over the 1,96 and 3 standard deviations with the effect of the new and good news and the standard deviations on the traditional approximate return and the standard deviations (volatility) and the obtained new approximate return and the new standard deviation (volatility) and compares them with the Monte Carlo simulations.

scholarly journals Jump Adapted Scheme Of a Non Mark Dependent Jump Diffusion Process with Application to the Merton Jump Diffusion Model

2017 ◽  
Vol 5 (4) ◽  
pp. 80
Author(s):  
Renaud Fadonougbo ◽  
George O. Orwa
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Diffusion Process ◽  
Strong Convergence ◽  
General Result ◽  
Jump Diffusion ◽  
Discretization Scheme ◽  
Complete Proof ◽  
Jump Diffusion Process ◽  
Jump Diffusion Model

This paper provides a complete proof of the strong convergence of the Jump adapted discretization Scheme in the univariate and mark independent jump diffusion process case. We put in detail and clearly a known and general result for mark dependent jump diffusion process. A Monte-Carlo simulation is used as well to show numerical evidence.

scholarly journals Duality Between the Two-Locus Wright–Fisher Diffusion Model and the Ancestral Process with Recombination

2013 ◽  
Vol 50 (01) ◽  
pp. 256-271 ◽  
Author(s):  
Shuhei Mano
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Markov Chain ◽  
Markov Chain Monte Carlo ◽  
Diffusion Process ◽  
Closed Form ◽  
Numerical Method ◽  
Diffusion Model ◽  
Ancestral Recombination Graph ◽  
Duality Argument

Known results on the moments of the distribution generated by the two-locus Wright–Fisher diffusion model, and the duality between the diffusion process and the ancestral process with recombination are briefly summarized. A numerical method for computing moments using a Markov chain Monte Carlo simulation and a method to compute closed-form expressions of the moments are presented. By applying the duality argument, the properties of the ancestral recombination graph are studied in terms of the moments.

Physical mechanisms of bacterial survival revealed by combined grazing-incidence X-ray scattering and Monte Carlo simulation

2009 ◽  
Vol 12 (1-2) ◽  
pp. 209-217 ◽  
Author(s):  
Rafael G. Oliveira ◽  
Emanuel Schneck ◽  
Bonnie E. Quinn ◽  
Oleg V. Konovalov ◽  
Klaus Brandenburg ◽  
...  
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Grazing Incidence ◽  
Bacterial Survival ◽  
X Ray ◽  
Physical Mechanisms ◽  
X Ray Scattering ◽  
Ray Scattering
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