博士后招聘:
常年招聘非平衡热力学方向、复杂流体计算方向、大数据人工智能方向的博士后,与美国华盛顿大学西雅图分校钱纮教授联合指导,待遇按照必赢体育官网登录博士后管理规定从优。
研究方向:
复杂生化反应系统研究,非平衡热力学数学理论及应用,人工智能驱动的科学研究
教育经历:
- 09/2004-06/2009 清华大学周培源应用数学研究中心,理学博士
- 09/2000-06/2004 北京大学计算机科学与技术系,理学学士
- 09/2000-06/2004 北京大学数学系, 数学与应用数学第二学位
工作经历:
- 08/2020-至今 必赢唯一官方网站, 副教授
- 07/2015-07/2016 英国剑桥大学化学系, 访问学者
- 12/2012-07/2020 清华大学周培源应用数学研究中心, 副研究员
- 07/2011-12/2012 清华大学周培源应用数学研究中心, 助理研究员
- 09/2009-09/2010 美国密歇根大学安娜堡分校计算医学与生物信息学中心, 访问学者
- 07/2009-06/2011 清华大学生物系, 博士后
学生指导:
方欣桐、石炴烜(2023-至今,硕士生在读,必赢体育官网登录)
邓思为、李疏桐、张艳玲(2022-至今,硕士生在读,必赢体育官网登录)
黎国杰(2022-至今,硕士生在读,必赢体育官网登录)
王梦收、张馨予(2023-至今,博士生在读,必赢体育官网登录)
郝文思、袁典飘(2020-2022,专业硕士,必赢体育官网登录)
王梦收(2020-2023,学术硕士,必赢体育官网登录)
周锦娴(2020-2022,专业硕士,必赢体育官网登录)
杨武岳(2017-至今,博士生,清华大学,与朱毅副教授共同指导)
彭梁榕(2015-2019,理学博士,清华大学)
谭彭振 (2012-2017,理学硕士,清华大学,与雍稳安教授共同指导)
课程承担:
非平衡热力学(清华大学,2013年秋、2017年秋)
理论生物学 (清华大学,2014年春,与胡煜成合开)
高等数学 (必赢体育官网登录,2020年秋、2023年秋)
线性代数 (必赢体育官网登录,2023年春)
概率论-I (必赢体育官网登录,2021年秋)
概率统计 (必赢体育官网登录,2022年春)
实变函数 (必赢体育官网登录,2021年春、2022年秋、2023年春)
科研项目:
- 01/2022-12/2025: 广东基础与应用基础研究基金---2023A1515010157. Aβ多肽聚集诱导神经细胞凋亡的多尺度动力学建模(课题负责人).
- 01/2019-12/2022: 国家自然科学基金---21877070. 针对蛋白质聚集的抑制剂调控机制的动力学研究 (课题负责人).
- 01/2017-12/2020: 国家自然科学基金---11671415. 基于液晶理论的生物形态学建模和模拟 (主要参与人).
- 09/2015-09/2018: 清华大学自主科研项目---20151080424. 非平衡热力学数学基础及应用 (课题负责人).
- 01/2013-12/2016: 国家自然科学基金---11272169. 造血系统动力学分析与控制策略研究 (主要参与人).
- 01/2013-12/2015: 国家自然科学基金---11204150. 蛋白质淀粉样纤维形成动力学的建模、分析和预测 (课题负责人).
- 07/2013-07/2015: 清华大学自主科研项目---20121087902. 复杂流体的数学建模、分析和计算 (主要参与人).
发表论文:
人工智能驱动的科学研究:
- W.Y. Yang#, L.R. Peng#, Y. Zhu, L. Hong*. (2020) When machine learning meets multiscale modeling in chemical reactions. J. Chem. Phys. 153(9): 094117. (封面文章, 个人推荐)
- Y. Jiang#, W.Y. Yang#*, Y. Zhu, L Hong* (2023) Entropy structure informed learning for solving inverse problems of differential equations. Chaos Sol. Frac.
- P.P. Hu#, W.Y. Yang#, Y. Zhu, L. Hong* (2022) Revealing hidden dynamics from time-series data by ODENet. J. Comp. Phys. 461: 111203.
- W.Y. Yang, P.Z. Tan, X.J. Fu, L. Hong*. (2019) Prediction of amyloid aggregation rates by machine learning and feature selection. J. Chem. Phys. 151(8): 084106.
非平衡热力学数学理论及应用:
(1)热力学数学理论
- L. Hong*, H. Qian*. (2021) Stochastic dynamics, large deviation principle, and non-equilibrium thermodynamics. Phys. Rev. E. 104: 044113.
- L. Hong, H. Qian*. (2020) The statistical foundation of entropy in extended irreversible thermodynamics. J. Phys. A: Stat. Mech. Appl. 53: 425202. (个人推荐)
- L. Hong, H. Qian*, L.F. Thompson. (2020) Representations and divergences in the space of probability measures and stochastic thermodynamics. J. Comp. Appl. Math. 376: 112842.
- L.P. Rong, H. Qian*, L. Hong*. (2020) Thermodynamics of Markov processes with non-extensive entropy and free energy. Phys. Rev. E 101(2): 022114.
- L.R. Peng, Y. Zhu, L. Hong* (2018) Generalized Onsager's reciprocal relations for the master and Fokker-Planck equations. Phys. Rev. E. 97(6): 062123.
- L.R. Peng, Y. Zhu, L. Hong* (2018) The Markov process admits a consistent steady-state thermodynamic formalism. J. Math. Phys. 59(1): 013302.
- L. Hong, J. Chen, Y. Zhu, W.A. Yong* (2016) Novel dissipative properties of the master equation. J. Math. Phys. 57(10): 103303.
- J.T. Huang, W.A. Yong, L. Hong* (2016) Generalization of the Kullback-Leibler divergence in the Tsallis statistics. J. Math. Anal. Appl. 436(1): 501-512.
(2)复杂流体数学建模
- L.P. Rong*, L. Hong*. (2021) Recent advances in conservation-dissipation formalism for irreversible processes. Entropy, 23(11): 1447. (综述)
- P.P. Hu, L. Hong, Y. Zhu*. (2020) Linear and nonlinear electromagnetic waves in modulated honeycomb media. Stud. Appl. Math. 144: 18-45.
- L.P. Rong, Y.C. Hu, L. Hong*. (2019) Conservation-Dissipation Formalism for soft matter physics: I. Augmentation to Doi's variational approach. Euro. Phys.J. E. 42(6): 73.
- L.P. Rong, Y.C. Hu, L. Hong*. (2019) Conservation-Dissipation Formalism for soft matter physics: II. Application to non-isothermal nematic liquid crystals. Euro. Phys. J. E. 42(6): 74.
- Y.C. Hu*, L. Hong, W.H. Deng. (2018) Phase transition dynamics and stochastic resonance in topologically confined nematic liquid crystals. Phys. Rev. E. 98(3): 032706.
- M. Grmela*, L. Hong, D. Jou, G. Lebon, M. Pavelka (2017) Hamiltonian and Godunov structures of the Grad hierarchy. Phys. Rev. E. 95(3): 033121.
- L. Hong*, Z.B. Yang, Y. Zhu, W.A. Yong (2015) A novel construction of thermodynamically compatible models and its correspondence with Boltzmann-equation-based moment-closure hierarchies. J. Non-Equil. Therm. 40(4): 247-256.
- Y. Zhu, L. Hong, Z.B. Yang, W.A. Yong* (2015) Conservation-dissipation formalism of irreversible thermodynamics. J. Non-Equil. Therm., 40(2): 67-74. (个人推荐)
- L. Hong, C.Y. Wang* (2009) Annular axisymmetric stagnation flow on a moving cylinder. Int. J. Eng. Sci., 47(1): 141-152.
- C.Y. Wang*, L. Hong (2006) Similarity solutions of the Navier-Stokes equations. Adv. Mech., 36(1): 31-35.
复杂生化反应系统研究:
(1)复杂生化反应动力学
- L.R. Peng#, W.Y. Yang#, D.Y. Zhang, C.J. Zhuge*, L. Hong* (2020) Epidemic analysis of COVID-19 in China by dynamical modeling. arXiv:2002.06563. (高引文章)
- W. Chang, G.Y. He, K. Yan, Z.L. Wang*, Y.F. Zhang, T.Y. Dong, Y.X. Liu, L.S. Zhang, L. Hong* (2021) Doping control analysis of small peptides in human urine using LC-HRMS with parallel reaction monitoring mode screening and confirmation. Analy. Meth. 13: 5838-5850.
- W.Y. Yang#, D.Y. Zhang#, L.R. Peng, C.J. Zhuge*, L. Hong* (2021) Rational evaluation of various epidemic models based on the COVID-19 data of China. Epidemics. 37: 100501.
- Y.J. Huang, L. Hong, W.A. Yong* (2015) Partial equilibrium approximations in apoptosis. II. The death-inducing signaling complex subsystem. Math. Biosci. 270: 126-134.
(2)蛋白质聚集及抑制
- L. Hong*, C.F. Lee*, Y.J. Huang (2017) Statistical mechanics and kinetics of amyloid fibrillation. Chapter 4, Page 113-186. in Biophysics and Biochemistry of Protein Aggregation, edited by J.M. Yuan & H.X. Zhou, World Scientific Press. (综述)
- M.S. Wang, G. Li, L.R. Peng, L. Hong*. (2023) Towards optimal control of amyloid fibrillation. Bull. Math. Biol. 85: 99.
- L. Dong, H.Z. Xie, L. Jia, L. Hong*, G. Li* (2023) Inhibition of amyloid-β aggregation and cytotoxicity by berbamine hydrochloride. Chem. Eur. J. e202301865.
- J.T. Wen, L. Hong, G. Krainer, Q.Q. Yao, T.P.J. Knowles, S. Wu*, S. Perrett*. (2021) Conformational expansion of tau in condensates promotes irreversible aggregation. J. Am. Chem. Soc. 143(33): 13056-13064. (个人推荐)
- G. Li*, Y. Zhou, W.Y. Yang, C. Zhang, L. Hong*, L. Jia*. (2021) Inhibitory effects of sulfated polysaccharides from the sea cucumber cucumaria frondosa against Aβ40 aggregation and cytotoxicity. ACS Chem. Neurosci. 12: 1854-1859.
- Q.Q. Yao, L. Hong, S. Wu*, S. Perrett*. (2020) Distinct microscopic mechanisms for the accelerated aggregation of pathogenic Tau mutants revealed by kinetic analysis. Phys. Chem. Chem. Phys. 22(14): 7241-7249.
- G. Li#, W.Y. Yang#, W.H. Li, Y.Y. Luo, Y.J. Lim, Y. Li, A. Paul, D. Segal, L. Hong*, Y.M. Li* (2020) Rational design of a cocktail of inhibitors against Aβ aggregation. Chem. Eur. J. 26(16): 3499-3503. (热点文章)
- Y.J. Lim, W.H. Zhou, G. Li, Z.W. Hu, L. Hong*, X.F. Yu*, Y.M. Li*. (2019) Black phosphorus nanomaterials regulate the aggregation of amyloid-β. ChemNanoMat. 5(5): 606-611.
- J.C. Sang, G. Meisl, A.M. Thackray, L. Hong, et al. (2018) Direct observation of murine prion protein replication in vitro. J. Am. Chem. Soc. 140(44): 14789-14798.
- G. Li, W.Y. Yang, Y.F. Zhao, Y.X. Chen, L. Hong*, Y.M. Li*. (2018) Differential modulation of the aggregation of N-terminal truncated Aβ using Cucurbiturils. Chem. Eur. J. 24(51): 13647-13653.
- F. Kundel, L. Hong, et al. (2018) Measurement of Tau filament fragmentation provides insights into prion-like spreading. ACS Chem. Neurosci. 9(6): 1276-1282.
- K. Kamgarparsi, L. Hong, A. Naito, C.L. Brooks III, A. Ramamoorthy* (2017) Growth-incompetent monomers of human calcitonin lead to a noncanonical direct relationship between peptide concentration and aggregation lag time. J. Biol. Chem., 292(36): 14963-14976.
- M. Iljina, L. Hong, et al. (2017) Nanobodies raised against monomeric α-synuclein inhibit fibril formation and destabilize toxic oligomeric species. BMC Biol., 15(1): 57.
- L. Hong*, Y.J. Huang, W.A. Yong (2015) A kinetic model for cell damage caused by oligomer formation. Biophys. J., 109(7): 1338-1346.
- L. Hong*, W.A. Yong (2013) Simple moment-closure model for the self-assembly of breakable amyloid filaments. Biophys. J., 104(3): 533-540. (个人推荐)
- P.Z. Tan, L. Hong* (2013) Modeling fibril fragmentation in real-time. J. Chem. Phys., 139: 084904.
- X.H. Qi#, L. Hong#, Y. Zhang* (2012) A variational model for oligomer-formation process of GNNQQNY peptide from yeast prion protein Sup35. Biophys. J., 102(3): 597-605.
- L. Hong, X.H. Qi, Y. Zhang* (2012) Dissecting the kinetic process of amyloid fiber formation through asymptotic analysis. J. Phys. Chem. B, 116(23): 6611-6617.
- L. Hong, X.H. Qi, Y. Zhang* (2011) A lattice-gas model for amyloid fibril aggregation. Europhys. Lett., 94, 68006.
(2)蛋白质结构及动力学
- F. Lou#, L. Hong#, S. Wu*, S. Perrett* (2023) Folding pathway and energy landscape of the dimeric multidomain prion protein Ure2 revealed by single molecule analysis. J. Phys. Chem. B.
- S. Wu#, L. Hong#, Y.Q. Wang#, Y.J. Qiong, J. Yang, J. Yang, H. Zhang, S. Perrett*. (2020) Kinetics of the conformational cycle of Hsp70 reveals the importance of the dynamic and heterogeneous nature of Hsp70 for its function. Proc. Natl. Acad. Sci. U.S.A. 117(14): 7814-7823. (个人推荐)
- Y.W. Zhang, E.V. Yates, L. Hong, et al. (2018) On-chip measurements of protein unfolding from direct observations of micron-scale diffusion. Chem. Sci. 9(14): 3503-3507.
- L.L. Kong, K.L. Saar, R. Jacquat, L. Hong et al. (2017) Mechanism of biosurfactant adsorption to oil/water interfaces from millisecond scale tensiometry measurements. Interface Focus, 7(6): 20170013.
- L. Hong*, J.Z. Lei (2011) A general shape equation for local regular structure of biomolecular chains. 2011 IEEE Conf. Sys. Biol., 144-148.
- L. Hong*, J.Z. Lei* (2009) Scaling law for the radius of gyration of proteins and its dependence on hydrophobicity. J. Poly. Sci. B, 47(2): 207-214. (个人推荐)
- L. Hong (2008) A statistical mechanical model for antiparallel beta-sheet/coil equilibrium. J. Chem. Phys., 129(22): 225101.
- L. Hong*, J.Z. Lei (2008) Statistical mechanical model for helix-sheet-coil transitions in homopolypeptides. Phys. Rev. E, 78(5): 051904.