Shin-Ho Chung publications

  • T. W. Allen, T. Bastug, S. Kuyucak and S. H. Chung. Gramicidin A channel as a test ground for molecular dynamics force fields. Biophysical Journal 84, 2159-2168, 2003. PDF: (Full article, PDF, 237KB)
  • B. Corry, S. Kuyucak and S. H. Chung. Dielectric self-energy in Poisson-Boltzmann and Poisson-Nernst-Planck models of ion channels. Biophysical Journal 84, 3594-3606, 2003. Biophysical Journal: Online version (Full article, PDF, 243KB)
  • M. O'Mara, P. H. Barry and S. H. Chung. A model of the glycine receptor deduced from Brownian dynamics studies. Proceedings of the National Academy of Sciences USA 100, 4310-4315, 2003. (Full article, PDF, 260KB)
  • V. Krishnamurthy and S. H. Chung. Adaptive learning algorithms for Nernst potential and current-voltage curves in nerve cell membrane ion channels. IEEE Transaction on NanoBioscience 2 (No. 4), 266-278, 2004. (Full article, PDF, 490KB)
  • B. Corry, M. O'Mara and S. H. Chung. Conduction mechanisms of chloride ions in ClC-type channels. Biophysical Journal 86, 846-860, 2004. (Full article, PDF, 502KB)
  • B. Corry, M. O'Mara and S. H. Chung. Permeation dynamics of chloride ions in the ClC- 0 and ClC-1 channels. Chemical Physics Letters 386, 233-238, 2004. (Full article, PDF, 341KB)
  • S. H. Chung and D. P. Tieleman. Computational and theoretical approaches to unraveling the permeation dynamics in biological nanotubes. In: M. Rieth and W. Schommers (eds.). Computational Nanotechnology. American Scientific Publishers, CA. Vol 6. Chapter 12, pp. 567-637. (Full article, PDF, 2372KB)
  • T. Vora, B. Corry and S. H. Chung. A model of sodium channels. Biochimica et Biophysica Acta - Biomembranes 1668, 106-116, 2004. (Full article, PDF, 408KB)
  • B. Corry and S. H. Chung. Influence of protein flexibility on the electrostatic energy landscape in gramicidin A. European Biophysics Journal 34, 208-216, 2005. (Full article, PDF, 355KB)
  • V. Krishnamurthy and S. H. Chung. Brownian dynamics simulation for modelling ion permeation across bionanotubes. IEEE Transactions on NanoBioscience 4, 102-111, 2005. (Full article, PDF, 436KB)
  • V. Krishnamurthy and S. H. Chung. Ion channels - estimation and control at macroscopic and nano scales. Australian Journal of Electrical and Electronic Engineering 2, 59-68, 2005. (Full article, PDF, 138KB)
  • B. Corry, T. Vora and S. H. Chung. Electrostatic basis of valence selectivity in cationic channels. Biochimica et Biophysica Acta - Biomembranes 1711, 72-86, 2005. (Full article, PDF, 414KB)
  • V. Krishnamurthy, S. H. Chung and G. Dumont. Editors. Ion Channels: Bionanotubes. Special Issue of IEEE Transactions on Nanobioscience 4,1-132. IEEE Press, March 2005.
  • IEEE Transactions on Nanobioscience: Online version
  • M. L. O'Mara, B. Cromer, M. W. Parker and S. H. Chung. Homology model of the GABAA receptor examined using Brownian dynamics. Biophysical Journal 88, 3286-3299, 2005. (Full article, PDF, 425KB)
  • Bisset, B. Corry and S. H. Chung. The fast gating mechanism in ClC-0 channels. Biophysical Journal 89, 179-186, 2005. (Full article, PDF, 191KB)
  • S. H. Chung and B. Corry. Three computational methods for studying permeation, selectivity and dynamics in biological ion channels. Soft Matters 1, 417-427, 2005. (Full article, PDF, 537KB)  (Cover of Softmatter, PDF, 480KB)
  • B. Corry and S. H. Chung. Mechanisms of valence selectivity in biological ion channels. Cellular & Molecular Life Sciences 63, 301-315, 2006. (Full article, PDF, 509KB)
  • V. Krishnamurthy and S. H. Chung. Adaptive Brownian dynamics simulation for estimating potential of mean force in ion channel permeation. IEEE Transactions on Nanobioscience 5, 126-138, 2006. (Full article, PDF, 455KB)
  • S. H. Chung, O. S. Andersen and V. Krishnamurthy. Editors. Handbook of Ion Channels: Dynamics, Structure, and Applications. Springer Verlag, New York.
  • S. H. Chung and V. Krishnamurthy. Brownian dynamics: a powerful tool for studying ion permeation in bio-nanotubes. In: Handbook of Ion Channels: Dynamics, Structure, and Applications. S. H. Chung, O. S. Andersen and V. Krishnamurthy (eds.), Springer Verlag, New York. Chapter 15. Chapter 15 (PDF, 1180KB)
  • V. Krishnamurthy and S. H. Chung. Signal processing based on hidden Markov models for extracting small channel currents. In: Handbook of Ion Channels: Dynamics, Structure, and Applications. S. H. Chung, O. S. Andersen and V. Krishnamurthy (eds.), Springer Verlag, New York. Chapter 19. Chapter 19 (PDF, 2643KB)
  • T. Vora, B. Corry and S. H. Chung. Brownian dynamics investigation into the conductance state of the MscS channel crystal structure. Biochimica et Biophysica Acta - Biomembranes 1758, 730-737, 2006. (Full article, PDF, 303KB)
  • V. Krishnamurthy, M. Hoyles, R. Saab and S. H. Chung. Permeation in gramicidin ion channels by directly estimating the potential of mean force using Brownian dynamics. Journal of Computational and Theoretical Nanoscience 3, 702-711, 2006. (Full article, PDF, 138KB)
  • V. Krishnamurthy and S. H. Chung. Large-scale dynamical models and estimation for permeation in biological membrane ion channels. Proceedings of the IEEE 95 (5), 853-880, 2007. (Full article, PDF, 985KB)
  • V. Krishnamurthy, T. Vora and S. H. Chung. Adaptive Brownian dynamics for shape estimation of sodium ion channels. Journal of Nanoscience and Nanotechnology 7, 1-9, 2007. (Full article, PDF, 327KB)
  • S. H. Chung and B. Corry. Conduction properties of KcsA measured using Brownian dynamics with flexible carbonyl groups in the selectivity filter. Biophysical Journal 93, 44-53, 2007.  (Full article, PDF, 708KB)  
  • S. H. Chung. Bionanotubes: the ultimate units of the physiology of life. Australian Physics 44, 16-17, 2007. (Full article, PDF, 3437KB)
  • Jin Aun Ng, Taira Vora, Vikram Krishnamurthy and Shin-Ho Chung. Estimating the dielectric constant of the channel protein and pore. European Biophysics Journal 37, 213-222, 2008. (Full article, PDF, 393KB)
  • Matthew Holyles, Vikram Krishnamurthy, May Siksik, and Shin-Ho Chung. Brownian dynamics theory for predicting internal and external blockages of tetraethylammonium in the KcsA potassium channel. Biophysical Journal 94, 366-378, 2008. (Full article, PDF, 538KB)
  • Taira Vora, David Bisset and Shin-Ho Chung. Conduction of Na+ and K+ through the NaK Channel: Molecular and Brownian Dynamics Studies. Biophysical Journal 95, 1600-1611, 2008. (Full article, PDF, 930KB)
  • Dan Gordon, Vikram Krishnamurthy and Shin-Ho Chung. A Generalised Langevin Algorithm for Studying Permeation Across Biological Ion Channels. Molecular Physics 106 (No. 11), 1353-1361, 2008. (Full article, PDF, 226KB)
  • David Bisset and Shin-Ho Chung. Efficacy of External Tetraethylammonium Block of the KcsA Potassium Channel: Molecular and Brownian Dynamics Studies. Biochimica et Biophysica Act - Biomembrane 1778, 2273-2282, 2008. (Full article, PDF, 503KB)
  • Taira Vora, Ben Corry and Shin-Ho Chung. Brownian dynamics study of flux ratios in sodium channels. European Biophysical Journal 38, 45-52, 2008. (Full article, PDF, 310KB)
  • Tamsyn A. Hilder, Daniel Gordon, and Shin-Ho Chung. Salt rejection and water transport through boron nitride nanotubes. Small 5, 2183-2190, 2009. (Full article, PDF, 519KB) DOI: 10.1002/smll.200900349
  • Tamsyn A. Hilder, Daniel Gordon, and Shin-Ho Chung. Boron nitride nanotubes selectively permeable to cations or anions. Small 5, 2870-2875, 2009. (Full article, PDF, 373KB) DOI: 10.1002/smll.200901229
  • Dan Gordon, Vikram Krishnamuthy and Shin-Ho Chung. Generalized Langevin models of molecular dynamics simulations, with applications to ion channels. Journal of Chemical Physics 131, 134102-1 - 134102-11, 2009. (Full article, PDF, 563KB)
  • Dan Gordon, Matthew Hoyles and Shin-Ho Chung. An algorithm for rigid-body Brownian dynamics. Physical Review E 80, 066703-1 - 066703-12, 2009. (Full article, PDf, 436KB)
  • Tamsyn A. Hilder, Rui Yang, V. Ganesh, Dan Gordon, Andrey Bliznyuk, Alistair P. Rendell and Shin-Ho Chung. Validity of current force fields for simulations on boron nitride nanotubes. Micro & Nano Letters 5, 150 - 156, 2010. (Full article, PDF, 241KB)
  • Tamsyn A. Hilder, Dan Gordon and Shin-Ho Chung. Synthetic chloride-selective carbon nanotubes examined using molecular and stochastic dynamics. Biophysical Journal 99, 1734 - 1742, 2010. (Full article, PDF, 2001KB).