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Selected Recent Publications and Preprints
- H. Kannan, P. Sun, M. Warren, T. Caglar, P. Yao, B. R. Taylor, K. Sahu, D. Ge, M. Mori, D. Kleinfeld, J. Dong, B. Li, and T. Hwa,
Spatiotemporal development of growth and death zones in expanding bacterial colonies driven by emergent nutrient dynamics,
2023 (submitted)
(preprint at bioRxiv)
- Z. Huang and B. Li, Variational implicit solvation with
Legendre-transformed Poisson-Boltzmann elecrtrostatics, 2023 (submitted).
- S. Liu, L.-T. Cheng, and B. Li, Cell polarity and movement with
reaction-diffusion and moving boundary:
Rigorous modeling and robust simulations, SIAM J. Applied Math, S515-S537, 2023.
- S. Liu, Z. Zhang, H.-B. Cheng, L.-T. Cheng, and B. Li,
Explicit-solute implicit-Solvent molecular simulation
with binary level-set, adaptive-mobility, and GPU, J. Comput. Phys.,
472, 111673, 2023.
(Preprint)
- B. Li, Z. Zhang, and S. Zhou,
The calculus of boundary variations and the dielectric boundary force in the
Poisson-Boltzmann theory for molecular solvation, J. Nonlinear Sci., 31:89, pp. 1-50, 2021.
(Preprint)
- S. Zhou, Y. Zhang, L.-T. Cheng, and B. Li,
Prediction of multiple dry-wet transition pathways with a mesoscale variational approach,
J. Chem. Phys., 155, 124110, 2021.
(Preprint)
- B. Ciotti and B. Li, Passing from discrete to continuum models of electrostatic energy,
SIAM J. Math. Anal., 53(4), 4568-4604, 2021.
(Published version - permission and copyright of SIAM.)
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C. Fan, B. Li, and M. White, A generalized Rayleigh-Plesset equation for ions with solvent
fluctuations, SIAM J. Applied Math, 81:3, 1098-1115, 2021.
(Published version - permission and copyright of SIAM.)
- Z. Zhang, C. Ricci, C. Fan, L.-T. Cheng, B. Li, and J. A. McCammon,
Coupling Monte Carlo, variational implicit solvation, and
binary level-set for simulations of biomolecular binding,
J. Chem. Theory Comput., 17, 2465-2478, 2021.
(Preprint)
- S. Zhou, R. G. Weiss, L.-T. Cheng, J. Dzubiella, J. A. McCammon*, and B. Li*,
Variational implicit-solvent predictions of the dry-wet transition pathways for
ligand-receptor binding and unbinding kinetics, Proc. Natl Acad. Sci. USA,
116:30, 14989-14994, 2019. (*: Corresponding authors.)
(Main text.
SI.
A related presentation.)
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M. Warren, H. Sun, Y. Yan, J. Cremer, B. Li*, and T. Hwa*,
Spatiotemporal establishment of dense bacterial colonies growing on hard agar,
eLife, 8:e41093, 2019. (*: Corresponding authors.)
(Open access.
A related presentation.)
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B. Ciotti and B. Li, Legendre transforms of electrostatic free-energy functionals,
SIAM J. Applied Math., 78(6), 2973-2995, 2018.
(Published version - permission and copyright of SIAM.)
- S. Dai, B. Li, and J. Lu,
Convergence of phase-field free energy and boundary force for molecular solvation,
Arch. Rational Mech. Anal., 227(1), 105-147, 2018.
(Preprint.
A related presentation.)
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