Engineered Artificial Membranes and Biosensing: From Atoms to Devices

How to build nano machine sensors out of artificial cell membranes and protein molecules? How to model the dynamics of such devices – from the molecular level to the actual sensing device? How to model the bio-electronic interface of such devices? Our collaborator is Dr Bruce Cornell of Surgical Diagnostics, who built a remarkable biosensor out of artificial membranes. The above movie was prepared by Bruce Cornell. Papers 4, 5, 6, 8 and 9 below deal with the modelling the dynamics of this nano-machine sensor.

Related Papers and Book

  1. Book: Biological Membrane Ion Channels, Chung, Andersen and Krishnamurthy, Springer, 2007.
  2. W. Hoiles, V. Krishnamurthy The Effect of Tethers on Artificial Cell Membranes: A Coarse-Grained Molecular Dynamics Study, PLOS ONE, Oct 2016
  3. W. Hoiles, V. Krishnamurthy, Dynamic Modeling of Antimicrobial Pore Formation in Engineered Tethered Membranes, IEEE Transactions on Molecular, Biological, and Multi-Scale Communications, Vol1, No.3, pp.265–276, 2015.
  4. Hoiles, B. Cornell, V. Krishnamurthy. An Engineered Membrane to Measure Electroporation: Effect of Tethers and Bioelectronic Interface, Biophysical Journal, 2014.
  5. Hoiles, V. Krishnamurthy, B. Cornell, Modelling the Bioelectronic Interface in Engineered Tethered Membranes: From Biosensing to Electroporation, IEEE Transactions on Biomedical Circuits and Systems, 2015.
  6. V. Krishnamurthy, B. Cornell, A Molecular Machine Biosensor : Construction, Predictive Models and Experimental Studies, Biosensors and Bioelectronics, Vol.34, No.1, pp.261–266, April 2012 (Impact Factor 5.4).

  7. Wanasundara, V. Krishnamurthy, S.H. Chung, Free Energy Calculations of Gramicidin Dimer Dissociation, Journal of Physical Chemistry, Vol.115(46), pp.13765– 13770, 2011. (Impact factor 4.8)

  8. V. Krishnamurthy, S. Monfared. B. Cornell, Ion-Channel Biosensors – Part II: Dynamic Modeling, Analysis and Statistical Signal Processing, IEEE Transactions Nanotechnology, (Special Issue on Nanoelectronic Interface to Biomolecules and Cells), Vol.9, No.3, pp.313–321, 2010.

  9. V. Krishnamurthy, S. Monfared. B. Cornell, Ion-Channel Biosensors – Part I: Construction, Operation and Clinical Studies, IEEE Transactions Nanotechnology, (Special Issue on Nanoelectronic Interface to Biomolecules and Cells), Vol.9, No.3, pp.303– 312, 2010.

  10. Gordon, V. Krishnamurthy, and S.H. Chung, Generalized Langevin models of molecular dynamics simulations, with applications to ion channels, Journal of Chemical Physics, Vol.131, 11 pages, 2009.

  11. Gordon, V. Krishnamurthy, S. H. Chung, Generalized Langevin Equation Model for Permeation in Ion Channels, Molecular Physics, Vol.106, No.11, pp.1353–1361, June 2008.

  12. Hoyles, V. Krishnamurthy, M. Siksik and S.H. Chung, Brownian Dynamics Theory for Predicting Internal and External Blockages of Tetraethylamonium in the KcsA Potassium Channel, Biophysical Journal, Vol.94, pp.366–378, January 2008.

  13. V. Krishnamurthy, K. Luk, B. Cornell, D. Martin, Gramicidin Ion Channel based Nano-Biosensors: Construction, Stochastic Dynamical Models and Statistical Detection Algorithms, IEEE Sensors Journal, Vol.7, No.9, pp.1281–1288, September 2007.

  14. V. Krishnamurthy and S.H. Chung, Large-scale Dynamical Models and Estimation for Permeation in Biological Membrane Ion Channels, Proceedings of the IEEE, Special Issue on on Large Scale Dynamic Systems, Vol.95, No.5, pp.853–880, May 2007.