Publications

Huang, H. J., Tang, S. L., Chang, Y. C., Wang, H. C., Ng, T. H., Garmann, R. F., Chen, Y. W., Huang, J. Y., Kumar, R., Chang, S. H., Wu, S. R., Chao, C. Y., Matoba, K., Kenji, I., Gelbart, W. M., Ko, T. P., Wang, H. J., Lo, C. F., Chen, L. L., Wang, H. C. (2023) Multiple Nucleocapsid Structural Forms of Shrimp White Spot Syndrome Virus Suggests a Novel Viral Morphogenetic Pathway Int. J. Mol. Sci. 2023, 24(8), 7525.

Winchell, K. J., Yee, P. Y., Li, Y. L., Simafranca, A. F., Chang, J., Beren, C., Liu, X., Vidales, D. G., Thompson, R. J., Salamat, C. Z., Duong, Q. M., Jordan, R. S., Schwartz, B. J., Gelbart, W. M., Rubin, Y., Tolbert, S. H. (2023) Designing Amphiphilic Conjugated Polyelectrolytes for Self-Assembly into Straight-Chain Rod-like Micelles Macromolecules 2023, 56, 8, 3160–3170.

Knobler, C. M., Gelbart, W. M. (2022) How and why RNA genomes are (partially) ordered in viral capsids. Curr. Opin. Virol. 52:203-210.

Tanimoto, C. R., Thurm, A. R., Brandt, D. S., Knobler, C. M., Gelbart, W. M. (2022) The Nonmonotonic Dose Dependence of Protein Expression in Cells Transfected with Self-Amplifying RNA. J. Virol. 96 (7). doi: 10.1128/jvi.01858-21

Garmann, R. F., Goldfain, A. M., Tanimoto, C. R., Beren, C. E., Vasquez, F. F., Villarreal, D. A., Knobler, C. M., Gelbart, W. M., Manoharan, V. N. (2022) Single-particle studies of the effects of RNA-protein interactions on the self-assembly of RNA virus particles. PNAS, 119 (39) e2206292119.

Duran-Meza, A. L., Villagrande-Escareno, M. V., Ruiz-Garcia, J., Knobler, C. M., Gelbart, W. M. (2021) Controlling the surface charge of simple viruses. PLoS ONE, 16(9): e0255820. 

Beren, C., Cui, Y., Chakravarty, A., Yang, X., Knobler, C. M, Zhou, Z. H., Gelbart, W. M. (2020) Genome organization and interaction with capsid protein in a multipartite RNA virus. PNAS, 117 (20), 10673-80. 

Thurm, A. R., Beren, C., Duran-Meza, A. L., Knobler, C. M., Gelbart, W. M. (2019) RNA homopolymers form higher-curvature virus-like particles than do normal-composition RNAs.  Biophysical Journal, 117 (7), 1331-41. 

Chung, S., Lerner, E., Jin, Y., Kim, S., Alhadid, Y., Grimaud, L. W., Zhang, I. X., Knobler, C. M., Gelbart, W. M., Weiss, S. (2019) The effect of macromolecular crowding on single-round transcription by Escherichia coli RNA polymerase. Nucleic Acids Research, 47 (3), 1440-50. 

Biddlecome, A., Habte, H. H., McGrath, K. M, Sambanthamoorthy, S., Wurm, M., Sykora, M. M., Knobler, C. M., Lorenz, I. C., Lasaro, M., Elbers, K., Gelbart, W. M. (2019) Delivery of self-amplifying RNA vaccines in in vitro reconstituted virus-like particles. PLoS ONE, 14 (6): e0215031.

Beren, C. B., Liu, K. N., Dreesens, L. L., Knobler, C. M., Gelbart, W. M. (2018) Enzymatic Synthesis and Fractionation of Fluorescent PolyU RNAs. Bio-protocols, 8 (17) e2988. 

Garmann R. F., Knobler C. M., Gelbart W. M. (2018) Protocol for Efficient Cell-Free Synthesis of Cowpea Chlorotic Mottle Virus-Like Particles Containing Heterologous RNAs. In: Wege C., Lomonossoff G. (eds) Virus-Derived Nanoparticles for Advanced Technologies. Methods in Molecular Biology, vol 1776. Humana Press, New York, NY 

Chen, Y. J., Wu, D., Gelbart, W. M., Knobler, C. M., Phillips, R., Kegel, W. K. (2018) Two-Stage Dynamics of In Vivo Bacteriophage Genome Ejection. Phys. Rev. X, American Physical Society, 8, 021029.

Beren, C., Dreesens, L. L., Liu, K. N., Knobler, C. M., & Gelbart, W. M. (2017). The effect of RNA secondary structure on the self-assembly of viral capsids. Biophysical journal, 113, 339-347.

Chung, S., Lerner, E., Jin, Y., Kim, S., Alhadid, Y., Grimaud, L. W., . . . Weiss, S. (2017). The effect of macromolecular crowding on single-round transcription by E. coli RNA polymerase. bioRxiv, 218321.

Borodavka, A., Singaram, S. W., Stockley, P. G., Gelbart, W. M., Ben-Shaul, A., & Tuma, R. (2016). Sizes of long RNA molecules are determined by the branching patterns of their secondary structures. Biophysical journal, 111, 2077-2085.

Garmann, R. F., Gopal, A., Athavale, S. S., Knobler, C. M., Gelbart, W. M., & Harvey, S. C. (2015). Visualizing the global secondary structure of a viral RNA genome with cryo-electron microscopy. Rna, 21(5), 877-86.

Ben-Shaul, A., & Gelbart, W. M. (2015). Viral ssRNAs are indeed compact. Biophysical journal, 108, 14-16.

Garmann, R. F., Comas-Garcia, M., Knobler, C. M., & Gelbart, W. M. (2015). Physical principles in the self-assembly of a simple spherical virus. Accounts of chemical research, 49, 48-55.

Jin, Y., Sdao, S. M., Dover, J. A., Porcek, N. B., Knobler, C. M., Gelbart, W. M., & Parent, K. N. (2015). Bacteriophage P22 ejects all of its internal proteins before its genome. Virology, 485, 128-134.

Singaram, S. W., Garmann, R. F., Knobler, C. M., Gelbart, W. M., & Ben-Shaul, A. (2015). Role of RNA branchedness in the competition for viral capsid proteins. The Journal of Physical Chemistry B, 119, 13991-14002.

Jin, Y., Knobler, C. M., & Gelbart, W. M. (2015). Controlling the extent of viral genome release by a combination of osmotic stress and polyvalent cations. Physical Review E, 92, 022708.

Gelbart, W. M. (2015). DNA--peptide complexes: Regulation of interferon production. Nature materials, 14, 661.

Garmann, R. F., Sportsman, R., Beren, C., Manoharan, V. N., Knobler, C. M., & Gelbart, W. M. (2015). A simple RNA-DNA scaffold templates the assembly of monofunctional virus-like particles. Journal of the American Chemical Society, 137, 7584-7587.

Gopal, A., Egecioglu, D. E., Yoffe, A. M., Ben-Shaul, A., Rao, A. L., Knobler, C. M., & Gelbart, W. M. (2014). Viral RNAs are unusually compact. PLoS One, 9, e105875. 

Comas-Garcia, M., Garmann, R. F., Singaram, S. W., Ben-Shaul, A., Knobler, C. M., & Gelbart, W. M. (2014). Characterization of viral capsid protein self-assembly around short single-stranded RNA. The Journal of Physical Chemistry B, 118, 7510-7519.

Garmann, R. F., Comas-Garcia, M., Koay, M. S., Cornelissen, J. J., Knobler, C. M., & Gelbart, W. M. (2014). The role of electrostatics in the assembly pathway of a single-stranded RNA virus. Journal of virology, JVI--01044.

Garmann, R. F., Comas-Garcia, M., Gopal, A., Knobler, C. M., & Gelbart, W. M. (2014). The assembly pathway of an icosahedral single-stranded RNA virus depends on the strength of inter-subunit attractions. Journal of molecular biology, 426, 1050-1060.

Vega-Acosta, J. R., Cadena-Nava, R. D., Gelbart, W. M., Knobler, C. M., & Ruiz-Garcı́a, J. (2014). Electrophoretic mobilities of a viral capsid, its capsid protein, and their relation to viral assembly. The Journal of Physical Chemistry B, 118, 1984-1989.

Azizgolshani, O., Garmann, R. F., Cadena-Nava, R., Knobler, C. M., & Gelbart, W. M. (2013). Reconstituted plant viral capsids can release genes to mammalian cells. Virology, 441, 12-17.

Cadena-Nava, R. D., Comas-Garcia, M., Garmann, R. F., Rao, A. L., Knobler, C. M., & Gelbart, W. M. (2012). Self-assembly of viral capsid protein and RNA molecules of different sizes: requirement for a specific high protein/RNA mass ratio. Journal of virology, 86, 3318-3326. 

 Gopal, A., Zhou, Z. H., Knobler, C. M., & Gelbart, W. M. (2012). Visualizing large RNA molecules in solution. Rna, 18, 284-299.

Gelbart, W. M., Ben-Shaul, A., & Roux, D. (2012). Micelles, membranes, microemulsions, and monolayers. Springer Science & Business Media.

Comas-Garcia, M., Cadena-Nava, R. D., Rao, A. L., Knobler, C. M., & Gelbart, W. M. (2012). In vitro quantification of the relative packaging efficiencies of single-stranded RNA molecules by viral capsid protein. Journal of virology, JVI--01695.

Fang, L. T., Gelbart, W. M., & Ben-Shaul, A. (2011). The size of RNA as an ideal branched polymer. The Journal of chemical physics, 135, 10B616.

Snyder, J. E., Azizgolshani, O., Wu, B., He, Y., Lee, A. C., Jose, J., Suter, D. M., Knobler, C. M., Gelbart, W. M., Kuhn, R. J. (2011). Rescue of Infectious Particles from Pre-assembled Alphavirus Nucleocapsid Cores. Journal of virology.

Fang, L. T., Yoffe, A. M., Gelbart, W. M., & Ben-Shaul, A. (2011). A sequential folding model predicts length-independent secondary structure properties of long ssRNA. The Journal of Physical Chemistry B, 115, 3193-3199.

Cadena-Nava, R. D., Hu, Y., Garmann, R. F., Ng, B., Zelikin, A. N., Knobler, C. M., & Gelbart, W. M. (2011). Exploiting fluorescent polymers to probe the self-assembly of virus-like particles. The Journal of Physical Chemistry B, 115, 2386-2391.

Qiu, X., Rau, D. C., Parsegian, V. A., Fang, L. T., Knobler, C. M., & Gelbart, W. M. (2011). Salt-dependent DNA-DNA spacings in intact bacteriophage λ reflect relative importance of DNA self-repulsion and bending energies. Physical review letters, 106, 028102.

Yoffe, A. M., Prinsen, P., Gelbart, W. M., & Ben-Shaul, A. (2010). The ends of a large RNA molecule are necessarily close. Nucleic acids research, 39, 292-299.

Prinsen, P., Schoot, P., Gelbart, W. M., & Knobler, C. M. (2010). Multishell structures of virus coat proteins. The Journal of Physical Chemistry B, 114, 5522-5533.

Knobler, C. M., & Gelbart, W. M. (2010). What Determines the Size of an RNA Virus? In Emerging Topics in Physical Virology (pp. 185-215). World Scientific.

Knobler, C. M., & Gelbart, W. M. (2009). Physical chemistry of DNA viruses. Annual review of physical chemistry, 60, 367-383.

Gelbart, W. M., & Knobler, C. M. (2009). Pressurized viruses. Science, 323, 1682-1683.

Prinsen, P., Fang, L. T., Yoffe, A. M., Knobler, C. M., & Gelbart, W. M. (2009). The force acting on a polymer partially confined in a tube. The Journal of Physical Chemistry B, 113, 3873-3879.

Lavelle, L., Gingery, M., Phillips, M., Gelbart, W. M., Knobler, C. M., Cadena-Nava, R. D., Vega-Acosta, J. R., Pinedo-Torres, L. A., Ruiz-Garcia, J. (2009). Phase diagram of self-assembled viral capsid protein polymorphs. The Journal of Physical Chemistry B, 113, 3813-3819.

Yoffe, A. M., Prinsen, P., Gopal, A., Knobler, C. M., Gelbart, W. M., & Ben-Shaul, A. (2008). Predicting the sizes of large RNA molecules. Proceedings of the National Academy of Sciences.

Hu, Y., Zandi, R., Anavitarte, A., Knobler, C. M., & Gelbart, W. M. (2008). Packaging of a polymer by a viral capsid: the interplay between polymer length and capsid size. Biophysical journal, 94, 1428-1436.

Chang, C. B., Knobler, C. M., Gelbart, W. M., & Mason, T. G. (2008). Curvature dependence of viral protein structures on encapsidated nanoemulsion droplets. Acs Nano, 2, 281-286.

Gelbart, W. M., & Knobler, C. M. (2008). The physics of phages. Physics today, 61, 42.

Nguyen, T. T., Bruinsma, R. F., & Gelbart, W. M. (2006). Continuum theory of retroviral capsids. Physical review letters, 96, 078102.

Inamdar, M. M., Gelbart, W. M., & Phillips, R. (2006). Dynamics of DNA ejection from bacteriophage. Biophysical journal, 91, 411-420.

Grayson, P., Evilevitch, A., Inamdar, M. M., Purohit, P. K., Gelbart, W. M., Knobler, C. M., & Phillips, R. (2006). The effect of genome length on ejection forces in bacteriophage lambda. Virology, 348, 430-436. 

Nguyen, T. T., Bruinsma, R. F., & Gelbart, W. M. (2005). Elasticity theory and shape transitions of viral shells. Physical Review E, 72, 051923.

Bagatella-Flores, N., Schiessel, H., & Gelbart, W. M. (2005). Statics and dynamics of polymer-wrapped colloids. The Journal of Physical Chemistry B, 109, 21305-21312.

Borukhov, I., Bruinsma, R. F., Gelbart, W. M., & Liu, A. J. (2005). Structural polymorphism of the cytoskeleton: a model of linker-assisted filament aggregation. Proceedings of the National Academy of Sciences, 102, 3673-3678.

Evilevitch, A., Gober, J. W., Phillips, M., Knobler, C. M., & Gelbart, W. M. (2005). Measurements of DNA lengths remaining in a viral capsid after osmotically suppressed partial ejection. Biophysical journal, 88, 751-756.

Castelnovo, M., & Gelbart, W. M. (2004). Semiflexible chain condensation by neutral depleting agents: role of correlations between depletants. Macromolecules, 37, 3510-3517.

Tzlil, S., Deserno, M., Gelbart, W. M., & Ben-Shaul, A. (2004). A statistical-thermodynamic model of viral budding. Biophysical journal, 86, 2037-2048.

Zandi, R., Reguera, D., Bruinsma, R. F., Gelbart, W. M., & Rudnick, J. (2004). Origin of icosahedral symmetry in viruses. Proceedings of the National Academy of Sciences, 101, 15556-15560. 

Lee, K.-C., Borukhov, I., Gelbart, W. M., Liu, A. J., & Stevens, M. J. (2004). Effect of mono-and multivalent salts on angle-dependent attractions between charged rods. Physical review letters, 93, 128101.

Evilevitch, A., Castelnovo, M., Knobler, C. M., & Gelbart, W. M. (2004). Measuring the force ejecting DNA from phage. The Journal of Physical Chemistry B, 108, 6838-6843. 

Evilevitch, A., Lavelle, L., Knobler, C. M., Raspaud, E., & Gelbart, W. M. (2003). Osmotic pressure inhibition of DNA ejection from phage. Proceedings of the National Academy of Sciences, 100, 9292-9295.

Zandi, R., Reguera, D., Rudnick, J., & Gelbart, W. M. (2003). What drives the translocation of stiff chains? Proceedings of the National Academy of Sciences, 100, 8649-8653.

Cordova, A., Deserno, M., Gelbart, W. M., & Ben-Shaul, A. (2003). Osmotic shock and the strength of viral capsids. Biophysical journal, 85, 70-74.

Bruinsma, R. F., Gelbart, W. M., Reguera, D., Rudnick, J., & Zandi, R. (2003). Viral self-assembly as a thermodynamic process. Physical review letters, 90, 248101.

Tzlil, S., Kindt, J. T., Gelbart, W. M., & Ben-Shaul, A. (2003). Forces and pressures in DNA packaging and release from viral capsids. Biophysical journal, 84, 1616-1627.

Castelnovo, M., Bowles, R. K., Reiss, H., & Gelbart, W. M. (2003). Osmotic force resisting chain insertion in a colloidal suspension. The European Physical Journal E, 10, 191-197.

Borukhov, I., Lee, K.-C., Bruinsma, R. F., Gelbart, W. M., Liu, A. J., & Stevens, M. J. (2002). Association of two semiflexible polyelectrolytes by interchain linkers: theory and simulations. The Journal of chemical physics, 117, 462-480.

Deserno, M., & Gelbart, W. M. (2002). Adhesion and wrapping in colloid- vesicle complexes. The Journal of Physical Chemistry B, 106, 5543-5552.

Kindt, J., Tzlil, S., Ben-Shaul, A., & Gelbart, W. M. (2001). DNA packaging and ejection forces in bacteriophage. Proceedings of the National Academy of Sciences, 98, 13671-13674.

Schiessel, H., Bruinsma, R. F., & Gelbart, W. M. (2001). Electrostatic complexation of spheres and chains under elastic stress. The Journal of Chemical Physics, 115, 7245-7252.

Schiessel, H., Widom, J., Bruinsma, R. F., & Gelbart, W. M. (2001). Polymer reptation and nucleosome repositioning. Physical review letters, 86, 4414.

Schiessel, H., Gelbart, W. M., & Bruinsma, R. (2001). DNA folding: structural and mechanical properties of the two-angle model for chromatin. Biophysical Journal, 80, 1940-1956.

Borukhov, I., Bruinsma, R. F., Gelbart, W. M., & Liu, A. J. (2001). Elastically driven linker aggregation between two semiflexible polyelectrolytes. Physical review letters, 86, 2182.

Kindt, J. T., & Gelbart, W. M. (2001). Chain self-assembly and phase transitions in semiflexible polymer systems. The Journal of Chemical Physics, 114, 1432-1439.

Gelbart, W. M. (2001). DNA Condensation and Complexation. In Electrostatic effects in soft matter and biophysics (pp. 53-86). Springer.

Gelbart, W. M., Bruinsma, R. F., Pincus, P. A., & Parsegian, V. A. (2000). DNA-inspired electrostatics. Physics today, 53, 38-45.

Schiessel, H., Rudnick, J., Bruinsma, R., & Gelbart, W. M. (2000). Organized condensation of worm-like chains. EPL (Europhysics Letters), 51, 237.

Lambert, O., Letellier, L., Gelbart, W. M., & Rigaud, J.-L. (2000). DNA delivery by phage as a strategy for encapsulating toroidal condensates of arbitrary size into liposomes. Proceedings of the National Academy of Sciences, 97, 7248-7253.