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GRADUATE PROGRAM

 

 


 

 

    Address                       

    Department of Physics and Astronomy

       University of Waterloo

       Waterloo, Ontario N2L 3G1

 

    Email                             

    jeffchen@uwaterloo.ca

 

    Phone Number     

    (519)888-4567 extension 35361 (office)

                       

Education         

1982-1988, University of Maryland, USA, Ph.D in Physics.

1978-1982, Fudan University, China, B.Sc. in Physics.

 

    Positions Held     

n  9/2008-present: Department Chair, Physics and Astronomy, University of     Waterloo.

n  7/2001-present: Professor of Physics, University of Waterloo.

n  1/2002-3/2007:  Associate Dean for Computing, Faculty of Science,        University of Waterloo.

n  7/1997-7/2001:  Associate Professor of Physics, University of Waterloo.

n  9/1992-6/1997:  Assistant Professor of Physics, University of Waterloo.

n  8/1990-8/1992:  Research Staff, Xerox Research Center of Canada.

n  7/1988-7/1990:  Postdoctoral Fellow, University of Toronto.     

 

     Current Areas of Interest

n  Theories and computer simulations in soft condensed matter and biological physics: Polymers, membranes, protein folding, DNA structure, liquid crystals, etc.

 

n  Statistical physics and Monte Carlo/molecular dynamics simulations: development of statistical-physics models of macromolecules (DNA, proteins, polymers), new algorithm development for computer simulations, optimization method for complex systems, scaling theory, field theory.

 

     Link to Citation Stats

       Google scholar

 

     Recent Publications

 

n  Y. Jiang and J. Z. Y. Chen, “Influence of Chain Rigidity on the Phase Behavior of Wormlike Diblock Copolymers”, Phys. Rev. Lett. 110, 138305 (2013).

n  Y. Jiang and J. Z. Y. Chen, “Self-consistent field theory and numerical scheme for calculating the phase diagram of wormlike diblock copolymers”, Phys. Rev. E 88, 042603 (2013).

n  Y.-C. Su and J. Z. Y. Chen, “Budding transition of a self-avoiding polymer confined by a soft membrane adhering onto a flat wall”, Soft Matter 9, 570 (2013).

n  Y.-C. Su and J. Z. Y. Chen, “Pressing soft membrane on a self-avoiding polymer against a flat wall”, Phys. Rev. E 87, 052706 (2013) [Impact factor:

n  S. Li, Y. Jiang, J. Z. Y. Chen, “Morphologies and phase diagrams of ABC star triblock copolymers confined in a spherical cavity”, Soft Matter 9, 4843 (2013)

n  Y. Li, H. Miao, H. Ma, J. Z. Y. Chen, “Topological defects of tetratic liquid-crystal order on a soft spherical surface” (cover story), Soft Matter 9, 11461 (2013)

n  J. Z. Y. Chen, “Structure of two-dimensional rods confined by a line boundary”, Soft Matter 9, 10921 (2013)

n  J. Z. Y. Chen, “Free Energy and Extension of a Wormlike Chain in Tube Confinement”, Macromolecules 46, 9837 (2013)

n  Q. Liang, J. Li, P. Zhang, J. Z. Y. Chen, “Modified diffusion equation for the wormlike-chain statistics in curvilinear coordinates”, J. Chem. Phys. 24, 138, 244910 (2013)

n  W. Y. Zhang, Y. Jiang, J. Z. Y. Chen, "Onsager model for the structure of rigid rods confined on a spherical surface", Phys. Rev. Lett. 108, 057801 (2012).

n  J. Z. Y. Chen, “Structure of a micropipette-aspirated vesicle determined from the bending-energy model”, Phys. Rev. E 86, 041904 (2012).

n  W. Y. Zhang, Y. Jiang, J. Z. Y. Chen, “Solution of the Onsager model for the structure of rigid rods confined on a spherical surface”, Phys. Rev. E 85, 061710 (2012).

n  J. Z. Y. Chen, “Pulling or compressing a vesicle by force: Solution to the bending energy model”, Phys. Rev. E 85, 061910 (2012).

n  Y. Chen and J. Z. Y. Chen, "Adsorption and engulfing transitions in nanoparticle infiltration into a polymer brush", J. Polym. Sci. B: Polym Phys. 50, 21(R) (2012).

n  W.-Y. Zhang and J. Z. Y. Chen, "Tennis-ball state of a self-avoiding wormlike polymer confined on a spherical surface", Europhys. Lett. 94, 43001 (2011).

n  S. Q. Cao, G. H. Wei, and J. Z. Y. Chen, "Transformations of an oblate vesicle induced by an adhering spherical particle", Phys. Rev. E 84, 050901(R) (2011).

n  Y. Jiang, W.-Y. Zhang, and J. Z. Y. Chen, "Dependence of the disorder-lamellar stability boundary of a melt of asymmetric wormlike AB diblock copolymers on the chain rigidity", Phys. Rev. E 84, 041803 (2011).

n  J. Z. Y. Chen, "Coil-bridge transition and Monte Carlo simulation of a stretched polymer", Phys. Rev. E 84, 041809 (2011).

n  Y. Jiang and J. Z. Y. Chen, "Isotropic-nematic interface in a lyotropic system of wormlike chains with the Onsager interaction", Macromolecules 43, 10668 (2010).

n  J. Z. Y. Chen, "Model of a polymer chain adsorbed to a soft membrane surface", Phys. Rev. E (R) 82, 060801R (2010).

n  M. Deng, Y. Jiang, H. J. Liang, and J. Z. Y. Chen, "Adsorption of a wormlike polymer in a potential well near a hard wall", J. Chem. Phys. 133, 034902 (2010).

n  M. Deng, Y. Jiang, H. J. Liang, and J. Z. Y. Chen, "Wormlike polymer brush: a self-consistent field treatment", Macromolecules 43, 3455 (2010).

n  J. Z. Y. Chen and S. Mkrtchyan, "Adhesion between a rigid cylindrical particle and a membrane tube", Phys. Rev. E 81, 04906 (2010).

n  S. Mkrtchyan, C. Ing, J. Z. Y. Chen, " Adhesion of cylindrical colloids to the surface of a membrane", Phys. Rev. E 81, 011904 (2010).

n  J. Z. Y. Chen, Y. Liu, and H. J. Liang, "Structure of a tubular membrane confining spherical particles", Phys. Rev. Lett. 102, 168103 (2009).

n  L. X. Zhan, J. Z. Y. Chen, W.-K. Liu, "Comparison of predicted native structures of Met-enkephalin based on various accessible-surface-area solvent models", J. Comp. Chem. 30, 1051 (2009).

n  T. Cui, J. D. Ding, and J. Z. Y. Chen, "Dynamics of a self-avoiding polymer chain in slit, tube, and cube confinements", Phys. Rev. E 78, 061802(2008).

n  J. Z. Y. Chen, D. E. Sullivan, and X. Yuan, “Surface-Induced Liquid Crystal Transitions of Wormlike Polymers Confined in a Narrow Slit; A Mean-Field Theory, Macromolecules 40, 1187 (2007).

n  J. Z. Y. Chen, Swollen-to-globular transition of a self-avoiding polymer confined in a soft tube, Phys. Rev. Lett. 98, 088302 (2007).

n  R. Jiang, R.B. Barnett, J. C. L. Chow, and J. Z. Y. Chen, “The use of spatial dose gradients and probability density function to evaluate the effect of internal organ motion for prostate IMRT treatment planning”, Phys. in Med. and Bio. 52, 1469 (2007).

n  R. Jiang, R. Barnett, J. C. L. Chow, and J. Z. Y. Chen; "Evaluation of prostate IMRT treatment planning incorporating internal organ motion using a dose gradient analysis",  RADIOTHERAPY AND ONCOLOGY, 84, S68 (2007).

n  R. C. Hidalgo, D. E. Sullivan, and J. Z. Y. Chen, "Smectic phases in rod-coil diblock copolymers", J. Phys. Cond. Matt. 19, 376107 (2007)

n  H. Imamura and J. Z. Y. Chen, “Minimum model for the alpha-helix-to-beta-hairpin transition in proteins”, Proteins: Structure, Function and Bioinformatics, 67, 459 (2007).

n  L. X. Zhan, J. Z. Y. Chen, and W.-K. Liu, “Computational study of the Trp-cage miniprotein based on the ECEPP/3 force field”, Proteins: Structure, Function and Bioinformatics 66, 436 (2007).

n  L. X. Zhan, J. Z. Y. Chen, and W.-K. Liu, “Conformational study of Met-Enkephalin based on the ECEPP force fields”, Biophys J. 91, 2399 (2006).

n  J. Z. Y. Chen and D. E. Sullivan, “Free energy of a wormlike polymer chain confined in a slit: crossover between two scaling regimes”, Macromolecules 39, 7769 (2006).

n  T. Cui T, J. D. Ding, and J. Z. Y. Chen, Mean first-passage times of looping of polymers with intrachain reactive monomers: Lattice Monte Carlo simulations, Macromolecules 39, 5540 (2006) 

n  A. Sain, J. Z. Y. Chen, and B.-Y. Ha, Persistency of single-stranded DNA: The interplay between base sequences and base stacking, Physica A 369, 679 (2006).

n  H. Imamura and J. Z. Y. Chen, Dependence of folding dynamics and structural stability on the location of a hydrophobic pair in beta-hairpins, Proteins: Structure, Function and Bioinformatics 63, 555 (2006).

n  L. X. Zhan, J. Z. Y. Chen, and W.-K. Liu, Monte Carlo basin paving: An improved global optimization method, Phys. Rev. E 73, 015701 (2006).

n  J. Z. Y. Chen, D. E. Sullivan and X. Yuan, “Model for wormlike polymers confined between hard walls”, Europhys. Lett. 72, 89 (2005).

n  J. Z. Y. Chen, H.-K. Tsao, and Y.J. Sheng, Diffusion-controlled first contact of the ends of a polymer: crossover between two scaling regimes”, Phys. Rev. E 72, 031804 (2005).

n  L. X. Zhan, J. Z. Y. Chen, W.-K. Liu and S.K. Lai, “Asynchronous multicanonical basin hopping method and its application to cobalt nanoclusters”, J. Chem . Phys. 122, 244707 (2005).

n  R. C. Hidalgo, D. E. Sullivan, and J. Z. Y. Chen, Smectic ordering of homogeneous semiflexible polymers, Phys. Rev. E 71, 041804 (2005).

n  H. Imamura and J. Z. Y. Chen, Conformational conversion of proteins due to mutation, Europhys Lett. 67, 491 (2004).

n  J. Z. Y. Chen, H.-K. Tsao, and Y. J. Sheng, First passage time of cyclization dynamics of a wormlike chain, Europhys. Lett. 65, 407 (2004).

n  A. Sain, B.-Y. Ha, H.-K. Tsao,  and J. Z. Y. Chen, Chain persistency in single stranded DNA, Phys. Rev. E 69, 061913 (2004).

n  L. X. Zhan, B. Piwowar, W.-K. Liu, P. J. Hsu, S. K. Lai, and J. Z. Y. Chen, Multi-canonical basin hopping: a new optimization method for complex systems”, J. Chem. Phys. 120, 5536 (2004)

n  Y.-J. Sheng, H. J. Lin, J. Z. Y. Chen, and H. K. Tsao, Static properties of a stacking chain, Macromolecules 37, 9631 (2004).

n  Y.-J. Sheng, H. J. Lin, J. Z. Y. Chen, and H. K. Tsao, Loop formation of a flexible polymer with two random reactive sites, Macromolecules 37, 9257 (2004).

n  H.-K. Tsao, J. Z. Y. Chen and Y. J. Sheng, Effect of intrachain mismatch of loop-to-coil transition of an associated chain, Macromolecules 36, 5863 (2003).

n  Y.-J. Sheng, H.-J. Lin, J. Z. Y. Chen and H.-K. Tsao, Effect of the intermediate state on the loop-to-coil transition of a telechelic chain, J. Chem. Phys. 118, 8513 (2003).

n  A. Lemak, J.R. Lepock, and J. Z. Y. Chen, Unfolding proteins in an external field: can we always observe theintermediate states?, Phys. Rev. E 67, 031910 (2003)

n  J. Z. Y. Chen and H. Imamura, Unified model for alpha-helix and beta-sheet structures in proteins, Physica A 321, 181 (2003).

n  J. Z. Y. Chen, A. Lemak, J. R. Lepock, and J. P. Kemp, Minimal model for prion folding pathways, Proteins: Structure, Function and Genetics 51, 283 (2003).

n  A. Lemak, J. R. Lepock, and J.Z.Y. Chen, Molecular dynamics simulations of a protein model in uniform and elongation flow fields, Proteins: Structure, Function and Genetics 51, 224 (2003).

n  Y.-J. Sheng, J. Z. Y. Chen and H.-K. Tsao, Open-to-closed transition of a hard-sphere chain with attractive ends, Macromolecules 35, 9624 (2002).

n  A. V.Ermoshkin, J. Z. Y. Chen and P.-Y. Lai, Adsorption of a random copolymer at a lipid bilayer membrane, Phys. Rev. E 66, 051912 (2002).

n  A. F. Wind, J. P. Kemp, A. V.Ermoshkin, and J. Z. Y. Chen, Structural and folding properties of a lattice prion model, Phys. Rev. E 66, 031909 (2002).

n  J. Z. Y. Chen, Unzipping dsDNA with a force: numerical simulations, Phys. Rev. E 66, 031912 (2002).

n  J. P. Kemp and J. Z. Y. Chen, Folding dynamics of the helical structure in proteins, Europhys. Lett. 59, 721 (2002).

n  S. Lam, H. Peemoeller and J. Z. Y. Chen, NMR measurement and molecular dynamics simulation of interaction of H2O with a surface, J. of Colloid and Interface Sci. 248, 255 (2002)

n  J. P. Kemp and J. Z. Y. Chen, “Helical structures in proteins”, Biomacromolecules 2, 389 (2001).

n  S. W. Dwyer, M. Trott, and Z. Y. Chen, “Localization of random copolymers at a sharp interface: effect of the excluded-volume”, J. Chem. Phys. 113, 10377 (2000).

n  J. P. Kemp, U. Hansmann, and Z. Y. Chen, “Universal properties of the coil-helix transition”, J. Europhys. 15, 371 (2000).

n  Z. Y. Chen, Localization of random copolymers at an interface, J. Chem. Phys. 112, 8665 (2000).

 

 

 


 

Other representative publications
 

n  J. P. Kemp and Z. Y. Chen “Formation of helical structures in wormlike polymers”, Phys. Rev. Lett. 81, 3880 (1998).

n  C. Cai and Z. Y. Chen, “Intrinsic viscosity of starburst dendrimers”, Macromolecules 31, 6393 (1998).

n  Z. Y. Chen and S.-M. Cui, “Monte-Carlo simulations of star-burst dendrimers”, Macromolecules, 29, 7963 (1996).

n  Z. Y. Chen and S.-M. Cui, “Orientational wetting layer of semiflexible polymers near a hard wall”, Phys. Rev. E 52, 3876 (1995).

n  Z. Y. Chen, “Nematic ordering in semiflexible polymer chains”, Macromolecules 26, 3419 (1993).

n  Z. Y. Chen, "Continuous isotropic-nematic transition of partially flexible polymers in two dimensions'', Phys. Rev. Lett. 71, 93-96 (1993). 

n  Z. Y. Chen, J. Noolandi and D. Izzo, "Effect of long-range surface interactions on wetting transitions of polymer mixtures'', Phys. Rev. Lett. 66, 727-730 (1991). 

n  Z. Y. Chen and M. B. Walker, "Universal model for modulated phases in the dielectric A2BX4 family'', Phys. Rev. Lett. 65, 1223-1226 (1990). 

n  Z. Y. Chen , A. Abbaci, S. Tang, and J. V. Sengers, "Global thermodynamic behavior of fluids in the critical region'', Phys. Rev. A 42, 4470-4484 (1990).