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1

A new analytical method for computing solvent-accessible surface area of macromolecules and its gradients

Shura Hayryan, Chin-Kun Hu, Jaroslav Skřivánek, Edik Hayryane, Imrich Pokorný

Journal:

Journal of Computational Chemistry

Année:

2005

Langue:

english

Fichier:

PDF, 191 KB

english, 2005

2

Enveloping triangulation method for detecting internal cavities in proteins and algorithm for computing their surface areas and volumes

Ján Buša, Shura Hayryan, Chin-Kun Hu, Jaroslav Skřivánek, Ming-Chya Wu

Journal:

Journal of Computational Chemistry

Année:

2009

Langue:

english

Fichier:

PDF, 314 KB

english, 2009

3

Multicanonical parallel simulations of proteins with continuous potentials

Shura Hayryan, Chin-Kun Hu, Shun-Yun Hu, Rung-Ji Shang

Journal:

Journal of Computational Chemistry

Année:

2001

Langue:

english

Fichier:

PDF, 241 KB

english, 2001

4

Efficient combination of Wang–Landau and transition matrix Monte Carlo methods for protein simulations

Ruben G. Ghulghazaryan, Shura Hayryan, Chin-Kun Hu

Journal:

Journal of Computational Chemistry

Année:

2007

Langue:

english

Fichier:

PDF, 493 KB

english, 2007

5

ARVO: A Fortran package for computing the solvent accessible surface area and the excluded volume of overlapping spheres via analytic equations

Ján Buša, Jozef Džurina, Edik Hayryan, Shura Hayryan, Chin-Kun Hu, Ján Plavka, Imrich Pokorný, Jaroslav Skřivánek, Ming-Chya Wu

Journal:

Computer Physics Communications

Année:

2005

Langue:

english

Fichier:

PDF, 554 KB

english, 2005

6

An enhanced version of SMMP—open-source software package for simulation of proteins

Frank Eisenmenger, Ulrich H.E. Hansmann, Shura Hayryan, Chin-Kun Hu

Journal:

Computer Physics Communications

Année:

2006

Langue:

english

Fichier:

PDF, 85 KB

english, 2006

7

Helix–coil transition in closed circular DNA

Vladimir F. Morozov, Eugene Sh. Mamasakhlisov, Arsen V. Grigoryan, Artem V. Badasyan, Shura Hayryan, Chin-Kun Hu

Journal:

Physica A: Statistical Mechanics and its Applications

Année:

2005

Langue:

english

Fichier:

PDF, 226 KB

english, 2005

8

[SMMP] A modern package for simulation of proteins

Frank Eisenmenger, Ulrich H.E. Hansmann, Shura Hayryan, Chin-Kun Hu

Journal:

Computer Physics Communications

Année:

2001

Langue:

english

Fichier:

PDF, 169 KB

english, 2001

9

Microscopical approach to the helix–coil transition in DNA

V.F. Morozov, E.Sh. Mamasakhlisov, Shura Hayryan, Chin-Kun Hu

Journal:

Physica A: Statistical Mechanics and its Applications

Année:

2000

Langue:

english

Fichier:

PDF, 83 KB

english, 2000

10

CAVE: A package for detection and quantitative analysis of internal cavities in a system of overlapping balls: Application to proteins

Ján Buša, Shura Hayryan, Chin-Kun Hu, Jaroslav Skřivánek, Ming-Chya Wu

Journal:

Computer Physics Communications

Année:

2010

Langue:

english

Fichier:

PDF, 316 KB

english, 2010

11

ARVO-CL: The OpenCL version of the ARVO package — An efficient tool for computing the accessible surface area and the excluded volume of proteins via analytical equations

Ján Buša Jr., Shura Hayryan, Ming-Chya Wu, Ján Buša, Chin-Kun Hu

Journal:

Computer Physics Communications

Année:

2012

Langue:

english

Fichier:

PDF, 193 KB

english, 2012

12

Folding of the Protein Domain hbSBD

Kouza, Maksim, Chang, Chi-Fon, Hayryan, Shura, Yu, Tsan-hung, Li, Mai Suan, Huang, Tai-huang, Hu, Chin-Kun

Journal:

Biophysical Journal

Année:

2005

Langue:

english

Fichier:

PDF, 280 KB

english, 2005

13

Long charged macromolecule in an entropic trap with rough surfaces

Mamasakhlisov, Yevgeni Sh., Hayryan, Shura, Hu, Chin-Kun

Journal:

Physical Review E

Année:

2012

Langue:

english

Fichier:

PDF, 140 KB

english, 2012

14

RNA folding in the presence of counterions

Mamasakhlisov, Yevgeni Sh., Hayryan, Shura, Morozov, V. F., Hu, Chin-Kun

Journal:

Physical Review E

Année:

2007

Langue:

english

Fichier:

PDF, 169 KB

english, 2007

15

CAVE-CL: An OpenCL version of the package for detection and quantitative analysis of internal cavities in a system of overlapping balls: Application to proteins

Buša, Ján, Buša, Ján, Hayryan, Shura, Hu, Chin-Kun, Wu, Ming-Chya

Journal:

Computer Physics Communications

Année:

2015

Langue:

english

Fichier:

PDF, 393 KB

english, 2015

16

Kinetics of the long ssRNA: Steady state

Mamasakhlisov, Yevgeni, Hayryan, Shura, Morozov, Vladimir, Hu, Chin-Kun

Journal:

EPL (Europhysics Letters)

Année:

2014

Langue:

english

Fichier:

PDF, 413 KB

english, 2014

17

Random sequences with power-law correlations exhibit proteinlike behavior

Mamasakhlisov, Yevgeni Sh., Hayryan, Shura, Hu, Chin-Kun

Journal:

The Journal of Chemical Physics

Année:

2007

Langue:

english

Fichier:

PDF, 159 KB

english, 2007

18

Collapse and hybridization of RNA: View from replica technique approach

Mamasakhlisov, Y. Sh., Bellucci, S., Hayryan, Shura, Caturyan, H., Grigoryan, Z., Hu, Chin-Kun

Journal:

The European Physical Journal E

Année:

2015

Langue:

english

Fichier:

PDF, 785 KB

english, 2015

19

Self-assembly of hen egg white lysozyme fibrils doped with magnetic particles

Majorošová, Jozefína, Tomašovičová, Natália, Gdovinová, Veronika, Yang, Chih-Wen, Batkova, Marianna, Batko, Ivan, Demčaková, Mária, Csach, Kornel, Kubovčíková, Martina, Hayryan, Shura, Hwang, Ing-Shou

Journal:

Journal of Magnetism and Magnetic Materials

Année:

2019

Langue:

english

Fichier:

PDF, 2.88 MB

english, 2019

20

PBCAVE: Program for exact classification of the mesh points of a protein with possible internal cavities and its application to Poisson–Boltzmann equation solution

Buša, Ján, Buša, Ján, Ayryan, Edik, Hayryan, Shura, Hu, Chin-Kun, Pokorný, Imrich, Skřivánek, Jaroslav

Journal:

Computer Physics Communications

Année:

2019

Langue:

english

Fichier:

PDF, 1.80 MB

english, 2019