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  • Ruoshi Yuan, Suzhan Zhang, Jiekai Yu, Yanqin Huang, Demin Lu, Runtan Cheng, Sui Huang, Ping Ao, Shu Zheng, Leroy Hood, Xiaomei Zhu. 2017 Beyond cancer genes: colorectal cancer as robust intrinsic states formed by molecular interactions. Open Biol. 7: 170169.
  • Yao Y, Tang Y, Ao P. Generating transverse response explicitly from harmonic oscillators[J]. Phys.rev.b, 2017, 96(13).
  • Ao P. Topological quantum numbers in nonrelativistic physics by David J. Thouless[J]. International Journal of Modern Physics B, 2017:1780001.
  • Su H, Wang G, Yuan R, et al. Decoding early myelopoiesis from dynamics of core endogenous network[J]. Science China Life Sciences, 2017, 60(6)627-646
  • Su, Hang; Wang, Gaowei; Yuan, Ruoshi & Ao, Ping.Coarse-grained endogenous network predicts main dynamical sequences in myeloid differentiation and trans-differentiation (粗粒内源性网络可预测血液系统髓系细胞分化和转分化的主要时序特征). SCIENTIA SINICA Vitae, 2017, 47(6)616-628
  • 敖平. 大卫· 邵勒斯的治学和建树: 纯粹探索凌绝顶[J]. Chinese Science Bulletin, 62(12): 1199-1203.
  • 敖平. 物理基本力学理论的三足鼎立:已完成的追求?——评《溯源探幽:熵的世界》[J]. 物理, 2017, 46(4):266-268.
  • Yuan, R.-S.; Zhu, X.-M.; Wang, G.-W.; Li, S.-T. & Ao, P., Cancer as robust intrinsic state shaped by evolution: a key issues review, Reports on Progress in Physics, 2017, 80 (4), 042701
  • Yu, He-Lin; Jiang, ShuHeng; Bu, Xu-Liang; Wang, Jia-Hua; Weng, Jing-Yi; Yang, XiaoMei; He, Kun-Yan; Zhang, Zhi-Gang; Ao, Ping; Xu, Jun & Xu, Min-Juan, Structural diversity of anti-pancreatic cancer capsimycins identified in mangrove-derived Streptomyces xiamenensis 318 and post-modification via a novel cytochrome P450 monooxygenase, Scientific Reports2016, 7, 40689


  • Qian H, Ao P, Tu Y, et al. A framework towards understanding mesoscopic phenomena: Emergent unpredictability, symmetry breaking and dynamics across scales[J]. Chemical Physics Letters, 2016, 665:153-161.
  • 敖平. 纯粹的探索:索利斯是践行科学精神的榜样[J]. 物理, 2016, 45(12): 774-777.
  • Yuan, R.-S.; Tang, Y. & Ao, P., On Uniqueness of "SDE Decomposition" in A-type Stochastic Integration (Comment to P. Zhou and T. Li, J. Chem. Phys. 144, 094109, 2016), The Journal of Chemical Physics, 2016, 145 (14), 147104
  • Chen, Y.-C.; Yuan, R.-S.; Ao, P.; Xu, M.-J. & Zhu, X.-M., Towards Stable Kinetics of Large Metabolic Networks: Nonequilibrium Potential Function Approach, Physical Review E, 2016, 93, 062409
  • Yuan, R.-S.; Zhu, X.-M.; Radich, J. P. & Ao, P., From Molecular Interaction to Acute Promyelocytic Leukemia: Calculating Leukemogenesis and Remission from Endogenous Molecular-Cellular Network, Scientific Reports2016, 6, 24307
  • Li, S.-T & Ao, P., Functional and Phenotypic Heterogeneity of Cancer Cells from Endogenous Molecular Network Theory View, Oncology Letters, 2016, accepted.
  • Wang, G.-W.; Su, H.; Yu, H.-L.; Yuan, R.-S.; Zhu, X.-M. & Ao, P., Endogenous Network States Predict Gain or Loss of Functions for Genetic Mutations in Hepatocellular Carcinoma, Journal of the Royal Society Interface, 2016, 13, 20151115
  • Yuan, R.-S.; Ma, S.-F.; Zhu, X.-M.; Li, J.; Liang, Y.-H.; Liu, T.; Zhu, Y.-X.; Zhang, B.-B.; Tan, S.; Guo, H.-J. ; Guan, S.-G.; Ao, P. & Zhou G.-Q., Core Level Regulatory Network of Osteoblast as Molecular Mechanism for Osteoporosis and Treatment, Oncotarget, 2016, 7 (4), 6923
  • Xu, M.-J.; Wang, J.-H.; Bu, X.-L.; Yu, H.-L.; Li, P.; Ou, H.-Y.; He, Y.; Xu, F.-D.; Hu, X.-Y.; Zhu, X.-M.; Ao, P. & Xu, J., Deciphering the Streamlined Genome of Streptomyces Xiamenensis 318 as the Producer of the Anti-fibrotic Drug Candidate XiamenmycinScientific Reports2016, 6, 18977
  • Xu, M.-J.; Chen, Y.-C.; Ao, P. & Zhu, X.-M., Kinetic Model of Metabolic Network for Xiamenmycin Biosynthetic Optimisation, IET Systems Biology, 2016, 10 (1), 17-22


  • Su, Hang; Wang, Gaowei; Zhu, Xiaomei; Xu, Minjuan & Ao, Ping. Endogenous molecular-cellular network theory: A system-biomedical perspective towards complex diseases (复杂疾病的系统医学视角:内源性网络理论). Chinese Journal of Nature, 2015, 37(6): 448-454
  • Tang, Y.; Yuan, R.-S. & Ao, P., Anomalous Free Energy Changes Induced by Topology, Physical Review E2015, 92, 062129
  • Lei X.; Tian, W.; Zhu, H.-Y.; Chen, T. & Ao, P., Biological Sources of Intrinsic and Extrinsic Noise in cI Expression of Lysogenic Phage Lambda, Scientific Reports, 2015, 5: 13597
  • Tang, Y.; Yuan, R.-S.; Chen, J.-H. & Ao, P., Work Relations Connecting Nonequilibrium Steady States without Detailed Balance, Physical Review E201591, 042108
  • Li, S.-T.; Zhu, X.-M.; Liu, B.-Y.; Wang, G.-W. & Ao, P., Endogenous Molecular Network Reveals Two Mechanisms of Heterogeneity within Gastric Cancer, Oncotarget, 2015, 3633
  • Zhu, X.-M.; Yuan, R.-S.; Hood, L. & Ao, P., Endogenous Molecular-Cellular Hierarchical Modeling of Prostate Carcinogenesis Uncovers Robust Structure, Progress in Biophysics and Molecular Biology2015, 117(1): 30-42


  • Tang, Y.; Yuan, R.-S.; Chen, J.-H. & Ao, P., Controlling Symmetry-Breaking States by a Hidden Quantity in Multiplicative Noise, Physical Review E201490, 052121
  • Tang, Y.; Yuan, R.-S. & Ao, P., Summing over Trajectories of Stochastic Dynamics with Multiplicative Noise, The Journal of Chemical Physics, 2014, 141 (4), 044125
  • Ao, P., Equivalent formulations of "the equation of life", Chinese Physics B. 2014, 23 (7): 070513
  • Tang, Y.; Yuan, R.-S. & Ao, P., Nonequilibrium Work Relation Beyond the Boltzmann-Gibbs Distribution, Physical Review E, 2014, 89, 062112
  • Wang, G.-W.; Zhu, X.-M.; Gu, J.-R. & Ao, P., Quantitative Implementation of Endogenous Molecular-Cellular Network Hypothesis in Hepatocellular carcinoma, Interface Focus, 2014, 4 (3), 20130064
  • Xu, S.; Jiao, S.-Y.; Jiang, P.-Y. & Ao, P., Two-time-scale Population Evolution on a Singular Landscape, Physical Review E, 2014, 89, 012724
  • Hu, J.; Zhu, X.-M.; Wang, X.-A.; Yuan, R.-S.; Zheng, W.; Xu, M.-J. & Ao, P., Two Programmed Replicative Lifespans of Saccharomyces cerevisiae Formed by Endogenous Molecular-Cellular Network, Journal of Theoretical Biology 2014, in press
  • Ma, Y.-A.; Tan, Q.-J.; Yuan, R.-S.; Yuan, B. & Ao, P., Potential Function in a Continuous Dissipative Chaotic System: Decomposition Scheme and Role of Strange Attractor, International Journal of Bifurcation and Chaos2014, 24 (2), 1450015
  • Yuan, R.-S.; Ma, Y.-A.; Yuan, B. & Ao, P., Lyapunov Function as Potential Function: A Dynamical Equivalence, Chinese Physics B. 2014, 23 (1): 010505
  • Xu, N.; Lei, X.; Ao, P. & Zhang, J., Bifurcation Analysis for Phage Lambda with Binding Energy Uncertainty, Computational Biology Journal, 2014, 465216.
  • Schlusener, J.; Zhu, X.-M.; Wang, G.-W.; Ao, P. & Schlusener, H. J., A Key Network Approach Reveals New Insight into Alzheimer's Disease, IET Systems Biology, 2014, (4), 169-75
  • Tan, S.; Zhang, B.-B.; Zhu, X.-M.; Ao, P.; Guo, H.-J.; Yi, W.-H. & Zhou, G.-Q., Deregulation of Bone Forming Cells in Bone Diseases and Anabolic Effects of Strontium-Containing Agents and Biomaterials, BioMed Research International2014, 2014
  • 中国生物化学与分子生物学会, 肿瘤发生发展的内源性网络假说, 2012-2013生物化学与分子生物学学科发展报告, 中国科学技术出版社, 2014, p181


  • Jiao, S.-R.; Xu, S.; Jiang, P.-Y.; Yuan, B.; Ao, P., Wright-Fisher dynamics on adaptive landscape, IET Systems Biology, 2013, 7(5):153-64.
  • Yuan, R.-S.; Wang, X.-A.; Ma, Y.-A.; Yuan, B. & Ao, P., Exploring a Noisy van der Pol Type Oscillator with a Stochastic Approach, Physical Review E, 2013, 87 (6), 062109
  • Ao, P.; Chen, T.-Q. & Shi, J.-H., Dynamical Decomposition of Markov Processes without Detailed Balance, Chinese Physics Letters, 2013, 30 (7) ,070201
  • Tang, K.-C.; Ao, P. & Yuan, B., Robust Reconstruction of the Fokker-Planck Equations from Time Series at Different Sampling Rates, Europhysics Letters, 2013, 102 (4), 40003
  • Wang, G.-W.; Zhu, X.-M.; Hood, L. & Ao, P., From Phage Lambda to Human Cancer: Endogenous Molecular-Cellular Network Hypothesis, Quantitative Biology, 2013
  • Tang, Y.; Yuan, R.-S. & Ma, Y.-A., Dynamical Behaviors Determined by the Lyapunov Function in Competitive Lotka-Volterra Systems, Physical Review E , 2013, 87 (1), 012708
  • Zhu, X.-M.; Zheng, W.; Chen, Y.-C. & Ao, P., Metabolism Regulation by Network Lyapunov Function, Proceedings of the 32nd Chinese Control Conference, 2013, 8246 - 8251
  • Wang, X.-A.; Yuan, R.-S.; Yuan, B. & Ao, P., A New Numerical Method to Construct Global Lyapunov Function for Complex Attractors, Proceedings of the 32nd Chinese Control Conference, 2013, 8213 - 8215
  • Zheng, W.; Zhu, X.-M.; Chen, Y.-C.; Lin, P.-H. & Ao, P., Towards Kinetic Modeling of Metabolic Networks with Incomplete Parameters, Proceedings of the 2013 IEEE Conference on Systems Biology2013
  • Ma, Y.-A.;  Yuan, R.-S.; Yuan, B. & Ao, P., Lyapunov Functions in Piecewise Linear Systems: From Fixed Point to Limit Cycle, Arxiv preprint arXiv:1306.6880, 2013



  • Kwon, C. & Ao, P., Nonequilibrium Steady State of a Stochastic System Driven by a Nonlinear Drift Force, Physical Review E, 2011, 84, 061106
  • Xu, W.; Yuan, B. & Ao, P., Construction of Lyapunov Function for Dissipative Gyroscopic System, Chinese Physics Letters2011, 28, 050201
  • Xu, M.-J.; Zhu, X.-M.; Lin, B.-H. & Ao, P., Generic Enzymatic Rate Equation, Progress in Biochemistry and Biophysics, 2011, 38 (8), 759 - 767
  • Xu, J.; Liu, L.-P.; Xu, M.-J.; Philippe, O.; Wang, F.-P.; Mohamed, J. & Xiao, X., Complete Genome Sequence of the Obligate Piezophilic hyperthermophilic Archaeon Pyrococcus yayanosii CH1. Journal of Bacteriology, 2011, 193 (16), 4297 - 4298
  • Lai, D.-W.; Li, Y.-X.; Xu, M.-J.; Deng, Z.-W., Ofwegen, L. v.; Qian, P.-Y.; Proksch, P. & Lin W.-H., Sinulariols A-S, 19-oxygenated Cembranoids from the Chinese Soft Coral Sinularia rigida, Tetrahedron, 2011, 67 (33), 6018 - 6029
  • Yuan, R.-S.; Ma, Y.-A.; Yuan, B. & Ao, P., Potential Function in Dynamical Systems and the Relation with Lyapunov Function, Proceedings of the 30th Chinese Control Conference, 2011, 6573 - 6580
  • Tian, W.; Zhu, H.-Y.; Lei, X. & Ao, P., Extrinsic vs. Intrinsic Noises in Phage Lambda Genetic Switch, Proceedings of 2011 IEEE Conference on Systems Biology, 2011, 67 - 71
  • Jiao, S.-Y.; Wang, Y.-B.; Yuan, B. & Ao, P., Kinetics of Muller's Ratchet from Adaptive Landscape Viewpoint, Proceedings of 2011 IEEE Conference on Systems Biology, 2011, 27 - 32


  • Ao, P.; Galas, D.; Hood, L.; Yin, L. & Zhu, X. M., Towards Predictive Stochastic Dynamical Modeling of Cancer Genesis and Progression, Interdisciplinary Sciences: Computational Life Sciences, 2010, 2, 140-144
  • Sun, T.-Z.; Yuan, R.-S.; Xu, W.; Zhu, F. & Shen, P.-P., Exploring a Minimal Two-component p53 Model, Physical Biology, 2010, 7 (3), 036008
  • Wang, F.-F.; Xu, M.-J.; Li, Q.-S.; Sattler, I. & Lin, W.-H., p-Aminoacetophenonic Acids Produced by a Mangrove Endophyte Streptomyces sp. (strain HK10552), Molecules, 2010, 15 (4), 2782 - 2790
  • Li, X.-L.; Xu, M.-J.; Zhao, Y.-L. & Xu, J., A Novel Benzo[f][1,7]Naphthyridine Produced by Streptomyces Albogriseolus from Mangrove Sediments, Molecules, 2010, 15 (12), 9298 - 9307
  • Xu, M.-J.; Bruhn, T.; Hertlein, B.; Brun, R.; Stich, A; Wu, J. & Bringmann, G., Shuangancistrotectorines A-E, Dimeric Naphthylisoquinoline Alkaloids with Three Chiral Biaryl Axes from the Chinese Plant Ancistrocladus tectorius, Chemistry - A European Journal, 2010, 16 (14), 4206 - 4216
  • Wei, Y.-Y.; Xu, M.-J.; Lin, W.-H.; Qiu, Y.; Zhang X.-K. & Zeng, J.-Z., Exfoliazone Inhibitsthe Growth of HepG2 Cells by Inducing Apoptosis, Journal of Xiamen University (Natural Science), 2010, 49 (3), 423 - 427



  • Ao, P.; Lee, L. W.; Lidstrom, M. E.; Yin, L. & Zhu, X., Towards Kinetic Modeling of Global Metabolic Networks with Incomplete Experimental Input on Kinetic Parameters, Chinese Journal of Biotechnology, 2008, 24, 980-994
  • Ao, P.; Galas, D.; Hood, L. & Zhu, X., Cancer as Robust Intrinsic State of Endogenous Molecular-Cellular Network Shaped by Evolution, Medical Hypotheses2008, 70, 678-684
  • Ao, P., Emerging of Stochastic Dynamical Equalities and Steady State Thermodynamics from Darwinian Dynamics, Communications in Theoretical Physics, 2008, 49, 1073
  • Ao, P., Borges Dilemma, Fundamental Laws, and Systems Biology, Bioinformatics and Biology Insights, 2008, 2, 201 - 202

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