李春贺

个人信息Personal Information

电子邮箱:chunheli@fudan.edu.cn

所在单位:上海数学中心

职称:副教授

在职信息:在职

毕业院校:中国科学院研究生院

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Publications

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Google scholar: https://scholar.google.com.hk/citations?user=w3X1UIwAAAAJ&hl=en

ResearchGate: https://www.researchgate.net/profile/Chunhe_Li2/contributions

ORCID: http://orcid.org/0000-0002-9127-3930

42, Jinchao Lv, Chunhe Li*, Landscape and path quantify the stochastic dynamics in complex ecological networks. in preparation

41, Leijun Ye, Chunhe Li*, Quantifying the attractor landscape and transition path of distributed working memory from large-scale brain network. in preparation

40, Shirui Bian, Yunxin Zhang, Chunhe Li*, An improved approach for calculating potential landscape from moment equations. submitted

39, Zihao Chen#, Jia Lu#, Xing-Ming Zhao, Haiyang Yu*, Chunhe Li*, Energy landscape reveals the underlying mechanism of cancer-adipose conversion with gene network models. submitted

38, Feng Chen, Yubo Bai, Chunhe Li*, Estimation of non-equilibrium transition rate from gene expression data. submitted

37, Maalavika Pillai#, Zihao Chen#, Mohit Kumar Jolly*, Chunhe Li*, Quantitative landscapes reveal trajectories of cell-state transitions associated with drug resistance in melanoma. iScience, accepted (2022)

36, Feng Chen, Chunhe Li*, Inferring structural and dynamical properties of gene networks from data with deep learning. NAR Genomics and Bioinformatics 4, lqac068 (2022)

35, Jintong Lang and Chunhe Li*, Unraveling the stochastic transition mechanism between oscillation states by landscape and minimum action path theory. Cover Article, Physical Chemistry Chemical Physics 24: 20050 (2022)

34, Lin Zhu#, Xin Kang#, Chunhe Li*, and Jie Zheng*, TMELand: An end-to-end pipeline for quantification and visualization of Waddington's epigenetic landscape based on gene regulatory network. IEEE/ACM Transactions on Computational Biology and Bioinformatics, accepted (2022).

33, Nika Shakiba, Chunhe Li, Jordi Garcia-Ojalvo, Kwang-Hyun Cho, Kiran Patil, Aleksandra Walczak, Yang-Yu Liu, Seppe Kuehn, Qing Nie, Allon Klein, Gustavo Deco, Morten Kringelbach, Srividya Iyer-Biswas, How can Waddington-like landscapes facilitate insights beyond developmental biology? Cell Systems 13: 4-9 (2022).

32, Xiaoguang Li#, Tongkai Li#, Chunhe Li* and Tiejun Li*, Uncovering the cell fate decision in lysis-lysogeny transition and stem cell development via Markov state modeling. J Chem Phys, 155: 245101 (2021).

31, Leijun Ye and Chunhe Li*, Energy Landscape Analysis of the Epithelial-Mesenchymal Transition Network. Book Chapter, Methods in Molecular Biology (2021).

30, Leijun Ye and Chunhe Li*, Quantifying the landscape of decision making from spiking neural networks. Frontiers In Computational Neuroscience, 15: 740601 (2021).

29, Jintong Lang, Qing Nie, and Chunhe Li*, Landscape and kinetic path quantify critical transitions in epithelial-mesenchymal transition. Biophysical J. 120: 4484–4500 (2021).

28, Chenyong Zhang and Chunhe Li*, Revealing the mechanism of lymphoid and myeloid cell differentiation and transdifferentiation through landscape quantification. Physical Review Research 3: 013186 (2021).

27, Xin Kang and Chunhe Li*,  A dimension reduction approach for energy landscape: Identifying intermediate states in EMT-metastasis network. Advanced Science, 8: 2003133 (2021).

26, Leijun Ye, Zhuoqing Song, and Chunhe Li*, Landscape and flux quantify the stochastic transition dynamics for p53 cell fate decision. J Chem Phys, 154: 025101 (2021).

25, Zihao Chen and Chunhe Li*, Quantifying the Landscape and Transition Paths for Proliferation–Quiescence Fate Decisions. J Clin Med, 9: 2582 (2020).

24, Xin Kang and Chunhe Li*, Landscape inferred from gene expression data governs pluripotency in embryonic stem cells. Computational and Structural Biotechnology Journal 18: 366–374 (2020).

23, Chunhe Li* and Leijun Ye, Landscape and flux govern cellular mode-hopping between oscillations. J Chem Phys 151: 175101 (2019).

22, Yunbin Zhang, Ning Liu, Wei Lin and Chunhe Li*, Quantifying the interplay between genetic and epigenetic regulations in stem cell development. New Journal of Physics 21: 103042 (2019).

21, Xin Kang, Jin Wang* and Chunhe Li*, Exposing the Underlying Relationship of Cancer Metastasis to Metabolism and Epithelial-Mesenchymal Transitions. iScience 21: 754-772 (2019).

20, Yujie Ye, Xin Kang, Jordan Bailey, Chunhe Li*, Tian Hong*, An enriched network motif family regulates multistep cell fate transitions with restricted reversibility. PLoS Comput Biol 15(3): e1006855 (2019). (* corresponding authors)

19, Chunhe Li* and Gabor Balazsi, A landscape view on the interplay between EMT and cancer metastasis. npj Systems Biology and Applications 4: 34 (2018).

18, Chunhe Li*, Lei Zhang*, Qing Nie*, Landscape reveals critical network structures for sharpening gene expression boundaries. BMC Systems Biology 12: 67 (2018).

17, Chunhe Li*, Landscape of gene networks for random parameter perturbation. Journal Cover ArticleIntegr. Biol. 10, 92-99, (2018). http://dx.doi.org/10.1039/C7IB00198C

16, Chunhe Li*, Identifying the optimal anticancer targets from the landscape of a cancer-immunity interaction network. Phys. Chem. Chem. Phys. 19, 7642-7651 (2017).

15, Chunhe Li, Tian Hong, Chiu-Ho Webb, Heather Karner, Sha Sun*, Qing Nie*, A self-enhanced transport mechanism through long noncoding RNAs for X chromosome inactivation. Scientific Reports 6: 31517 (2016).

14, Chunhe Li*, Tian Hong, and Qing Nie*, Quantifying the landscape and kinetic paths for epithelial-mesenchymal transition from a core circuit. Phys. Chem. Chem. Phys. 18, 17949-17956 (2016). (* corresponding authors)

13, Chunhe Li and Jin Wang*,Quantifying the Landscape for Development and Cancer from a Core Cancer Stem Cell Circuit. Cancer Research 75(13): 2607-18 (2015).

12, Chunhe Li and Jin Wang*, Landscape and flux reveal a new global view and physical quantification of mammalian cell cycle. Proc. Natl. Acad. Sci. 111, 14130-14135 (2014).  [Stony BrookNews]: http://sb.cc.stonybrook.edu/news/research/924CancerStudy.php

11, Chunhe Li and Jin Wang*, Quantifying the underlying landscape and paths of cancer. J. R. Soc. Interface 11:20140774 (2014). [Stony Brook News]: http://sb.cc.stonybrook.edu/news/research/924CancerStudy.php

10,  Chunhe Li and Jin Wang*, Quantifying Waddington landscapes and paths of non-adiabatic cell fate decisions for differentiation, reprogramming and transdifferentiation. J. R. Soc. Interface 10: 20130787 (2013).

9,Chunhe Li and Jin Wang*, Quantifying Cell Fate Decisions for Differentiation and Reprogramming of a Human Stem Cell Network: Landscape and Biological Paths. PLoS Comut. Biol. 9(8): e1003165 (2013)

8, Chunhe Li, Erkang Wang*, and Jin Wang*, Landscape topography determines global stability and robustness of a metabolic network. ACS Synth. Biol. 2012, 1 (6), pp 229–239.

7, Chunhe Li, Erkang Wang*, and Jin Wang*, Potential flux landscapes determine the global stability of a Lorenz chaotic attractor under intrinsic fluctuations. J. Chem. Phys. 136, 194108 (2012).

6, Chunhe Li, Erkang Wang*, and Jin Wang*, Landscape, Flux, Correlation, Resonance, Coherence, Stability and Key Network Wirings of Stochastic Circadian Oscillation. Biophys. J. 101, 1335-1344 (2011).

5, Chunhe Li, Erkang Wang*, and Jin Wang*, Potential Landscape and Probabilistic Flux of a Predator Prey Network. PLoS One 6, e17888:1-9 (2011).

4, Chunhe Li, Erkang Wang*, and Jin Wang*, Landscape and flux decomposition for exploring global natures of nonequilibrium dynamical systems under intrinsic statistical fluctuations. Chem. Phys. Lett. 505, 75-80 (2011).

3, Jin Wang*, Chunhe Li, Erkang Wang*, and Xidi Wang, A FPT Approach for Predicting Protein Localization from Yeast Genomic Data. PLoS One 6, e14449 (2011).

2, Jin Wang*, Chunhe Li, and Erkang Wang*, Potential and flux landscapes quantify the stability and robustness of budding yeast cell cycle network. Proc. Natl. Acad. Sci. 107, 8195-8200 (2010).

1, Jin Wang*, Chunhe Li, Erkang Wang*, and Xidi Wang*, Uncovering the rules for protein-protein interactions from yeast genomic data. Proc. Natl. Acad. Sci. 106, 3752-3757 (2009).