Electrostatic Regulation of Genome Packaging in Human Hepatitis B Virus (2009)
Jiang, Tao, Wang, Zhen-Gang, Wu, Jianzhong
Hepatitis B virus (HBV) is a contagious human pathogen causing liver diseases such as cirrhosis and hepatocellular carcinoma. An essential step during HBV replication is packaging of a pregenomic...
Nucleation in A/B/AB blends: Interplay between microphase assembly and macrophase separation (2009)
Wang, Jiafang, Müller, Marcus, Wang, Zhen-Gang
We study the interplay between microphase assembly and macrophase separation in A/B/AB ternary polymer blends by examining the free energy of localized fluctuation structures (micelles or droplets),...
A kinetic model for the enzymatic action of cellulase (2009)
Ting, Christina L., Makarov, Dmitrii E., Wang, Zhen-Gang
We develop a mechanochemical model for the dynamics of cellulase, a two-domain enzyme connected by a peptide linker, as it extracts and hydrolyzes a cellulose polymer from a crystalline substrate. We...
A Kinetic Model for the Enzymatic Action of Cellulase (2009)
Ting, Christina L., Makarov, Dmitrii E., Wang, Zhen-Gang
We develop a mechanochemical model for the dynamics of cellulase, a two-domain enzyme connected by a peptide linker, as it extracts and hydrolyzes a cellulose polymer from a crystalline substrate. We...
Effects of Ion Solvation on the Miscibility of Binary Polymer Blends (2008)
We study the effects of adding salt ions on the miscibility of a binary blend of polymers having different dielectric constants. The competition between the preference of the ions to be solvated by...
Heterogeneity in structurally arrested hard spheres (2008)
Li, Zi-Qi, Sun, Zhao-Yan, An, Li-Jia, Wang, Zhen-Gang
When cooled or compressed sufficiently rapidly, a liquid vitrifies into a glassy amorphous state. Vitrification in a dense liquid is associated with jamming of the particles. For hard spheres, the...
Nucleation of membrane adhesions (2008)
Zhang, Cheng-Zhong, Wang, Zhen-Gang
Recent experimental and theoretical studies of biomimetic membrane adhesions [Bruinsma et al., Phys. Rev. E 61, 4253 (2000); Boulbitch et al., Biophys. J. 81, 2743 (2001)] suggested that adhesion...
Metastable cluster intermediates in the condensation of charged macromolecule solutions (2007)
Hutchens, Shelby B., Wang, Zhen-Gang
The authors examine the possibility of a two-step nucleation to the bulk condensation transition that proceeds via a metastable liquid cluster intermediate having some preferred size. The metastable...
Random isotropic structures and possible glass transitions in diblock copolymer melts (2006)
Zhang, Cheng-Zhong, Wang, Zhen-Gang
We study the microstructural glass transition in diblock-copolymer melts using a thermodynamic replica approach. Our approach performs an expansion in terms of the natural smallness parameter—the...
Spakowitz, Andrew J., Wang, Zhen-Gang
We find exact expressions for the end-to-end distance vector distribution function with fixed end orientations for the wormlike chain model. This function in Fourier-Laplace space adopts the form of...
Topological constraints in nucleic acid hybridization kinetics (2005)
Bois, Justin S., Venkataraman, Suvir, Choi, Harry M. T., Spakowitz, Andrew J., Wang, Zhen-Gang, Pierce, Niles A.
A theoretical examination of kinetic mechanisms for forming knots and links in nucleic acid structures suggests that molecules involving base pairs between loops are likely to become topologically...
Topological constraints in nucleic acid hybridization kinetics (2005)
Bois, Justin S., Venkataraman, Suvir, Choi, Harry M. T., Spakowitz, Andrew J., Wang, Zhen-Gang, Pierce, Niles A.
A theoretical examination of kinetic mechanisms for forming knots and links in nucleic acid structures suggests that molecules involving base pairs between loops are likely to become topologically...
Nucleation in binary polymer blends: Effects of foreign mesoscopic spherical particles (2004)
Wang, Jiafang, Wang, Zhen-Gang, Yang, Yuliang
We study nucleation in binary polymer blends in the presence of mesoscopic spherical particles using self-consistent field theory, considering both heterogeneous and homogeneous nucleation...
Site-directed protein recombination as a shortest-path problem (2004)
Endelman, Jeffrey B., Silberg, Jonathan J., Wang, Zhen-Gang, Arnold, Frances H.
Protein function can be tuned using laboratory evolution, in which one rapidly searches through a library of proteins for the properties of interest. In site-directed recombination, n crossovers are...
Site-directed protein recombination as a shortest-path problem (2004)
Endelman, Jeffrey B., Silberg, Jonathan J., Wang, Zhen-Gang, Arnold, Frances H.
Protein function can be tuned using laboratory evolution, in which one rapidly searches through a library of proteins for the properties of interest. In site-directed recombination, n crossovers are...
Site-directed protein recombination as a shortest-path problem (2004)
Endelman, Jeffrey B., Silberg, Jonathan J., Wang, Zhen-Gang, Arnold, Frances H.
Protein function can be tuned using laboratory evolution, in which one rapidly searches through a library of proteins for the properties of interest. In site-directed recombination, n crossovers are...
Semiflexible polymer solutions. I. Phase behavior and single-chain statistics (2003)
Spakowitz, Andrew J., Wang, Zhen-Gang
We study the thermodynamics and single-chain statistics of wormlike polymer solutions with Maier–Saupe-type interactions using self-consistent-field (SCF) theory. The SCF equations are derived...
Semiflexible Polymer Confined to a Spherical Surface (2003)
Spakowitz, Andrew J., Wang, Zhen-Gang
We develop a formalism for describing the kinematics of a wormlike chain confined to the surface of a sphere that simultaneously satisfies the spherical confinement and the inextensibility of the...
Nucleation of stable cylinders from a metastable lamellar phase in a diblock copolymer melt (2003)
Wickham, Robert A., Shi, An-Chang, Wang, Zhen-Gang
The nucleation of a droplet of stable cylinder phase from a metastable lamellar phase is examined within the single-mode approximation to the mean-field Landau–Brazovskii model for diblock...
Nucleation in binary polymer blends: Effects of adding diblock copolymers (2003)
Wang, Jianfang, Zhang, Hongdong, Qiu, Feng, Wang, Zhen-Gang, Yang, Yuliang
The effects of adding AB diblock copolymers to A/B binary blends on the structure and thermodynamics of critical nuclei are studied using the self-consistent field theory. At a fixed ratio of the...
Nucleation of stable cylinders from a metastable lamellar phase in a diblock copolymer melt (2003)
Wickham, Robert A., Shi, An-Chang, Wang, Zhen-Gang
The nucleation of a droplet of stable cylinder phase from a metastable lamellar phase is examined within the single-mode approximation to the Brazovskii model for diblock copolymer melts. By...
Library analysis of SCHEMA-guided protein recombination (2003)
Michelle M. Meyer, Jonathan J. Silberg, Christopher A. Voigt, Jeffrey B. Endelman, Stephen L. Mayo, Zhen-gang Wang, ...
The computational algorithm SCHEMA was developed to estimate the disruption caused when amino acid residues that interact in the three-dimensional structure of a protein are inherited from different...
Library analysis of SCHEMA-guided protein recombination (2003)
Meyer, Michelle M., Silberg, Jonathan J., Voigt, Christopher A., Endelman, Jeffrey B., Mayo, Stephen L., Wang, Zhen-Gang, ...
The computational algorithm SCHEMA was developed to estimate the disruption caused when amino acid residues that interact in the three-dimensional structure of a protein are inherited from different...
A theory for concentration fluctuations in binary polymer blends is developed using field-theoretic techniques. The theory provides a simple, unified framework for addressing a number of important...
Nucleation in binary polymer blends: A self-consistent field study (2002)
Wood, Stephen M., Wang, Zhen-Gang
We study the structure and thermodynamics of the critical nuclei in metastable binary polymer blends using the self-consistent field method. At the mean-field level, our results are valid throughout...
On the direct evaluation of the equilibrium distribution of clusters by simulation. II (2001)
Kusaka, Isamu, Oxtoby, David W., Wang, Zhen-Gang
We clarify some of the subtle issues surrounding the observational cluster method, a simulation technique for studying nucleation. The validity of the method is reaffirmed here. The condition of the...
Computational method to reduce the search space for directed protein evolution (2001)
Voigt, Christopher A., Mayo, Stephen L., Arnold, Frances H., Wang, Zhen-Gang
We introduce a computational method to optimize the in vitro evolution of proteins. Simulating evolution with a simple model that statistically describes the fitness landscape, we find that...
Discovering New Ordered Phases of Block Copolymers (2000)
Bohbot-Raviv, Yardena, Wang, Zhen-Gang
We propose a new and general method for discovering novel ordered phases of block copolymer melts. The method involves minimizing a free energy functional in an arbitrary unit cell with respect to...
Transient instability upon temperature quench in weakly ordered block copolymers (1999)
We report a novel transient instability upon temperature quench in weakly ordered block copolymer microphases possessing a soft direction or directions, such as the lamellar and hexagonal cylinder...
On the direct evaluation of the equilibrium distribution of clusters by simulation (1999)
Kusaka, Isamu, Oxtoby, David W., Wang, Zhen-Gang
An expression is derived that relates the average population of a particular type of cluster in a metastable vapor phase of volume Vtot to the probability, estimated by simulation, of finding this...
We study the kinetics of order-disorder and order-order transitions in weakly segregated diblock copolymers using a time-dependent Ginzburg-Landau (TDGL) approach. In particular, we investigate the...
The kinetics of hexagonal to disordered and hexagonal to body-centered-cubic phase transitions in weakly segregated, microstructured systems (e.g., diblock copolymers) is studied using a...
Golubović, Leonardo, Wang, Zhen-Gang
We reveal a deep theoretical relationship between equilibrium statistical physics of smectic-A liquid crystals and nonequilibrium statistical physics of the Kardar-Parisi-Zhang dynamical model [M....
Response and instabilities of the lamellar phase of diblock copolymers under uniaxial stress (1994)
We study the quasistatic behavior of the lamellar phase of diblock copolymers under uniaxial compression and tension along the normal direction of the layers, in both the weak segregation limit (WSL)...
Spatially modulated phases in monolayers of mixed surfactants (1993)
We present a theoretical study of spatially modulated phases in self-assembled monolayers of mixed surfactants. We propose two models which are appropriate, respectively, for monolayers at a...
Chiral symmetry breaking in Langmuir monolayers and smectic films (1993)
Selinger, Jonathan V., Wang, Zhen-Gang, Bruinsma, Robijn F., Knobler, Charles M.
Langmuir monolayers and freely suspended smectic films can exhibit a spontaneous breaking of chiral symmetry. The order parameter that characterizes this symmetry breaking is coupled to variations in...
Anharmonic elasticity of smectics A and the Kardar-Parisi-Zhang model (1992)
Golubović, Leonardo, Wang, Zhen-Gang
We relate anharmonic equilibrium thermal fluctuations of smectics A to fluctuations of the Kardar-Parisi-Zhang (KPZ) dynamical model for a growing interface. The KPZ model in 1+1 dimensions is one to...
Turner, David, Wang, Zhen-Gang, Gruner, Sol, Mannock, David, Mcelhaney, Ronald
We present a quantitative study of the bicontinuous cubic phases in the didodecyl alkyl-β-D-glucopyranosyl-rac-glycerol (rac-di-12:0 β-GlcDAG) lipid-water system. A temperature-composition...
Turner, David, Wang, Zhen-Gang, Gruner, Sol, Mannock, David, Mcelhaney, Ronald
We present a quantitative study of the bicontinuous cubic phases in the didodecyl alkyl-β-D-glucopyranosyl-rac-glycerol (rac-di-12:0 β-GlcDAG) lipid-water system. A temperature-composition...
Turner, David, Wang, Zhen-Gang, Gruner, Sol, Mannock, David, Mcelhaney, Ronald
We present a quantitative study of the bicontinuous cubic phases in the didodecyl alkyl-β-D-glucopyranosyl-rac-glycerol (rac-di-12:0 β-GlcDAG) lipid-water system. A temperature-composition...
Equilibrium emulsification of polymer blends by diblock copolymers (1990)
The onset and morphology of various equilibrium emulsion phases for an A and B homopolymer mixture with diblock A-B copolymers as the compatibilizer, is investigated. Attention is focused on the...
Equilibrium emulsification of polymer blends by diblock copolymers (1990)
The onset and morphology of various equilibrium emulsion phases for an A and B homopolymer mixture with diblock A-B copolymers as the compatibilizer, is investigated. Attention is focused on the...
Equilibrium emulsification of polymer blends by diblock copolymers (1990)
The onset and morphology of various equilibrium emulsion phases for an A and B homopolymer mixture with diblock A-B copolymers as the compatibilizer, is investigated. Attention is focused on the...
Computational method to reduce the search space for directed protein evolution
Voigt, Christopher A., Mayo, Stephen L., Arnold, Frances H., Wang, Zhen-Gang
We introduce a computational method to optimize the in vitro evolution of proteins. Simulating evolution with a simple model that statistically describes the fitness landscape, we find that...
Topological constraints in nucleic acid hybridization kinetics
Bois, Justin S., Venkataraman, Suvir, Choi, Harry M. T., Spakowitz, Andrew J., Wang, Zhen-Gang, Pierce, Niles A.
A theoretical examination of kinetic mechanisms for forming knots and links in nucleic acid structures suggests that molecules involving base pairs between loops are likely to become topologically...
DNA Packaging in Bacteriophage: Is Twist Important?
Spakowitz, Andrew James, Wang, Zhen-Gang
We study the packaging of DNA into a bacteriophage capsid using computer simulation, specifically focusing on the potential impact of twist on the final packaged conformation. We perform two dynamic...
Computational method to reduce the search space for directed protein evolution
Voigt, Christopher A., Mayo, Stephen L., Arnold, Frances H., Wang, Zhen-Gang
We introduce a computational method to optimize the in vitro evolution of proteins. Simulating evolution with a simple model that statistically describes the fitness landscape, we find that...
Topological constraints in nucleic acid hybridization kinetics
Bois, Justin S., Venkataraman, Suvir, Choi, Harry M. T., Spakowitz, Andrew J., Wang, Zhen-Gang, Pierce, Niles A.
A theoretical examination of kinetic mechanisms for forming knots and links in nucleic acid structures suggests that molecules involving base pairs between loops are likely to become topologically...
DNA Packaging in Bacteriophage: Is Twist Important?
Spakowitz, Andrew James, Wang, Zhen-Gang
We study the packaging of DNA into a bacteriophage capsid using computer simulation, specifically focusing on the potential impact of twist on the final packaged conformation. We perform two dynamic...
Library analysis of SCHEMA-guided protein recombination
Meyer, Michelle M., Silberg, Jonathan J., Voigt, Christopher A., Endelman, Jeffrey B., Mayo, Stephen L., Wang, Zhen-Gang, ...
The computational algorithm SCHEMA was developed to estimate the disruption caused when amino acid residues that interact in the three-dimensional structure of a protein are inherited from different...
Osmotic Pressure and Packaging Structure of Caged DNA
Li, Zhidong, Wu, Jianzhong, Wang, Zhen-Gang
We present a theoretical model for aqueous solutions of double-stranded (ds) DNA with explicit consideration of electrostatic interactions, excluded-volume effects, van der Waals attractions, and...