Math and Biochem-Biophysics Research Webpage - Bo Li

Mathematics and Biochemistry-Biophysics

RESEARCH INITIATIVE

Publications

  1. Li-Tien Cheng, An Efficient Level Set Method for Constructing Wavefronts in Three Space Dimensions, J. Comput. Phys., 226, 2250-2270, 2007.

  2. Li-Tien Cheng, Joachim Dzubiella, J. Andrew McCammon, and Bo Li, Application of the level-set method to the implicit solvation of nonpolar molecules, J. Chem. Phys., 127, 084503, 2007.

  3. Hailiang Liu and Zhongming Wang, A field space-based level set method for computing multi-valued solutions to 1D Euler-Poisson equations, J. Comput. Phys., 225, 591-614, 2007.

  4. Hailiang Liu and Zhongming Wang, Computing multi-valued velocity and electrical fields for 1d Euler-Poisson equations. Applied Numer. Math., 57, 821-836, 2007.

  5. Jianwei Che, Joachim Dzubiella, Bo Li, and J. Andrew McCammon, Electrostatic free energy and its variations in implicit solvent models, J. Phys. Chem. B, 112(10), 3058-3069, 2008.

  6. Li-Tien Cheng and Yen-Hsi Tsai, Redistancing by Flow of Time Dependent Eikonal Equation, J. Comput. Phys., 227, 4002-4017, 2008.

  7. Yan Gong, Bo Li, and Zhilin Li, Immersed-interface finite-element method for elliptic interface problems with non-homogeneous jump conditions, SIAM. J. Numer. Anal. 46, 472-495, 2008.

  8. Hailiang Liu and Zhongming Wang, Superposition of multi-valued solutions in high frequency wave dynamics, J. Sci. Comput, 35, 192-218, 2008.

  9. Li-Tien Cheng, Yang Xie, Joachim Dzubiella, J. Andrew McCammon, Jianwei Che, and Bo Li, Coupling the level-set method with molecular mechanics for variational implicit solvation of nonpolar molecules, J. Chem. Theory Comput., 5, 257-266, 2009.

  10. Li-Tien Cheng, Zhongming Wang, Piotr Setny, Joachim Dzubiella, Bo Li, and J. Andrew McCammon, Interfaces and hydrophobic interactions in receptor-ligand systems: A level-set variational implicit solvent approach, J. Chem. Phys., 131, 144102, 2009.

  11. Bin Dong, Eric Savitsky, and Stanley Osher, A novel method for enhanced needle localization using ultrasound-guidance, Adv. Visual Comput.: Part I, 914-923, 2009

  12. Bo Li, Continuum electrostatics for ionic solutions with nonuniform ionic sizes, Nonlinearity, 22, 811-833, 2009.

  13. Bo Li, Minimization of electrostatic free energy and the Poisson-Boltzmann equation for molecular solvation with implicit solvent, SIAM J. Math. Anal., 40, 2536-2566, 2009.

  14. Bo Li, John Lowengrub, Andreas Ratz, and Axel Voigt, Geometric evolution laws for thin crystalline films: modeling and numerics, Review Article, Commun. Comput. Phys., 6, 433-482, 2009.

  15. Hailiang Liu and Zhongming Wang, A Bloch Band Based Level Set Method for Computing the Semiclassical Limit in Schroedinger Equations, J. Comput. Phys., 228, 3326-3344, 2009.

  16. P. Setny, Z. Wang, L.-T. Cheng, B. Li, J. A. McCammon, and J. Dzubliella, Dewetting-controlled binding of ligands to hydrophobic pockets, Phys. Rev. Lett., 103, 187801, 2009.

  17. Bo Li, Benzhuo Lu, Zhongming Wang, and J. Andrew McCammon, Solutions to a reduced Poisson-Nernst-Planck system and determination of reaction rates, Physica A, 389, 1329-1345, 2010.

  18. Li-Tien Cheng, Bo Li, and Zhongming Wang, Level-Set minimization of potential controlled Hadwiger valuations for molecular solvation, J. Comp. Phys., 229, 8497-8510, 2010.

  19. Bin Dong, Aichi Chien, Yu Mao, Jian Ye, Fernando Vinuela, and Stanley Osher, Level set based brain aneurysm capturing in 3D, Inverse Problems and Imaging (special issue in medical image analysis), 4, 241-255, 2010.

  20. Bin Dong, Aichi Chien, Zuowei Shen, and Stanley Osher, A new multiscale representation for shapes and its application to blood vessel recovery, SIAM J. Sci. Comput., 32, 1724-1739, 2010.

  21. Hsiao-Bing Cheng, Li-Tien Cheng, and Bo Li, Yukawa-field approximation of electrostatic free energy and dielectric boundary force, Nonlinearity, 24, 3215-3236, 2011.

  22. Xun Jia, Bin Dong, Yifei Lou and Steve B. Jiang, GPU-based iterative cone beam CT reconstruction using tight frame regularization, Physics in Medicine and Biology, 56, 3787-3807 2011.

  23. Bo Li and John Shopple, An interface-fitted finite element level set method with application to solidification and solvation, Commun. Comput. Phys., 10, 32-56, 2011.

  24. Bo Li, Xiaoliang Cheng, and Zhengfang Zhang, Dielectric boundary force in molecular solvation with the Poisson-Boltzmann free energy: A shape derivative approach, SIAM J. Applied Math., 71, 2093-2111, 2011.

  25. Yanxiang Zhao and Qiang Du, Diffuse interface model of multi-component vesicle adhesion and fusion, Phys. Rev. E, 84, 011903, 2011.

  26. Shenggao Zhou, Zhongming Wang, and Bo Li, Mean-field description of ionic size effects with non-uniform ionic sizes: A numerical approach, Phys. Rev. E, 84, 021901, 2011.

  27. Yuen-Yick Kwan, Additive Schwarz preconditioners with minimal overlap for triangular spectral elements, Commun. Comput. Phys., 2012.

  28. Zhongming Wang, Jianwei Che, Li-Tien Cheng, Joachim Dzubiella, Bo Li, and J. Andrew McCammon, Level-set variational implicit-solvent modeling of biomolecules with the Coulomb-field approximation, J. Chem. Theory Comput., 8, 386-397, 2012.

  29. Jiayi Wen, Shenggao Zhou, Zhenli Xu, and Bo Li, Competitive adsorption and ordered packing of counterions near highly charged surfaces: From mean-field theory to Monte Carlo simulations, Phys. Rev. E, 85, 041406, 2012.

  30. Bo Li and Yanxiang Zhao, Variational implicit solvation with solute molecular mechanics: From diffuse-interface to sharp-interface models, SIAM J. Applied Math., SIAM J. Appl. Math., 73, 1-23, 2013.

  31. Li-Tien Cheng, Bo Li, Michael White, and Shenggao Zhou, Motion of a cylindrical dielectric boundary, SIAM J. Applied Math., 73, 594-616, 2013.

  32. Zuojun Guo, Bo Li, Joachim Dzubiella, Li-Tien Cheng, J. Andrew McCammon, and Jianwei Che, Evaluation of hydration free energy by level-set variational implicit-solvent model with Coulomb-field approximation, J. Chem. Theory Comput., 9, 1778-1787, 2013.

  33. Yanxiang Zhao, Yuen-Yick Kwan, Jianwei Che, Bo Li, and J. Andrew McCammon, Phase-Field Approach to Implicit Solvation of Biomolecules with Coulomb-Field Approximation, J. Chem. Phys., 139, 024111, 2013.

  34. Shenggao Zhou, Kathleen E. Rogers, Cesar Augusto F. de Oliveira, Riccardo Baron, Li-Tien Cheng, Joachim Dzubiella, Bo Li, and J. Andrew McCammon, Variational implicit-solvent modeling of host-guest binding: A case study on Cucurbit[7]uril, J. Chem. Theory Comput., 8, 4195-4204, 2013.

  35. Bo Li, Pei Liu, Zhenli Xu, and Shenggao Zhou, Ionic size effects: generalized Boltzmann distributions, counterion stratification, and modified Debye length, Nonlinearity, 26, 2899-2922, 2013.

  36. Brian A. Camley, Yanxiang Zhao, Bo Li, Herbert Levine, and Wouter-Jan Rappel, Periodic migration in a physical model of cells on micropatterns, Phys. Rev. Lett., 111, 158102, 2013.

  37. Zuojun Guo, Bo Li, Joachim Dzubiella, Li-Tien Cheng, J. Andrew McCammon, and Jianwei Che, Heterogeneous hydration of p53/MDM2 complex, J. Chem. Theory Comput., 10(3), 1302-1313, 2014. PubMed: PMC3958133.

  38. Shenggao Zhou, Li-Tien Cheng, Joachim Dzubiella, Bo Li, and J. Andrew McCammon, Variational implicit solvation with Poisson-Boltzmann theory, J. Chem. Theory Comput., 10, 1454-1467, 2014. PubMed: PMC3985794.

  39. Brian A. Camley, Yunsong Zhang, Yanxiang Zhao, Bo Li, Eshel Ben-Jacob, Herbert Levine, and Wouter-Jan Rappel, Polarity mechanisms like contact inhibition of locomotion regulate persistent rotational motion of mammalian cells on micropatterns, Proc. Natl Acad. Sci. USA, 2014. (Early edition, September 25, 2014.)

  40. Timonthy Banham, Bo Li, and Yanxiang Zhao, Pattern formation by phase-field relaxation of bending energy with fixed surface area and volume, Phys. Rev. E, 90, 033308, 2014.
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Last updated by Bo Li on October 14, 2014. © Bo Li, 2007-2014.