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The landscape and flux of a minimum network motif, Wu Xing |
Kun Zhang(张坤)1, Ashley Xia(夏月)2,†, and Jin Wang(汪劲)3,‡ |
1 State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China; 2 The U.S. Center for Chinese Medicine by Beijing University of Chinese Medicine, 15005 Shady Groove Road, Suite 410, Rockville, MD 20850, USA; 3 Department of Chemistry and Physics, Department of Applied Mathematics, State University of New York at Stony Brook, Stony Brook, NY 11794, USA |
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Abstract Wu-Xing theory is an ancient philosophy that serves as a guiding principle in the traditional Chinese medicine (TCM). It has been used to explain the unbalance among the TCM organ systems in disease states and provide treatment philosophy qualitatively. Until now, it is still a challenge to explore the Wu-Xing theory beyond its philosophical nature. In this study, we established a quantitative framework using the landscape and flux theory to characterize the nature of the Wu-Xing theory from a perspective of a minimal network motif and leave certain specific functional aspects of Wu-Xing theory for future exploration. We uncovered the irregular ring shape of projection landscape for the Wu-Xing network with several local basins and barriers. We found that the dynamics of the self-organized Wu-Xing system was determined by the underlying negative landscape gradient force and the nonequilibrium rotational flux. While the shape of the Wu-Xing landscape determines the stabilities of the states, the rotational flux guarantees the persistent periodic oscillation and the stability of the flow. This provides a physical and quantitative basis for Yin-Yang duality of the driving forces for determining the dynamics and behaviors of the living systems. Applying landscape and flux analysis, we can identify the key parameter for the dynamics/function of Wu-Xing network. These findings allow us to have a deeper understanding of the scientific merits of the ancient Wu-Xing theory from the network motif perspective.
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Received: 04 April 2020
Revised: 28 August 2020
Accepted manuscript online: 20 October 2020
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PACS:
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05.40.-a
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(Fluctuation phenomena, random processes, noise, and Brownian motion)
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05.70.Ln
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(Nonequilibrium and irreversible thermodynamics)
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Fund: Project supported by the National Natural Science Foundation of China (Grant No. 21721003) and the Fund from the Ministry of Science and Technology of China (Grant No. 2016YFA0203200). |
Corresponding Authors:
†Corresponding author. E-mail: yuexia2008@gmail.com ‡Corresponding author. E-mail: jin.wang.1@stonybrook.edu
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Cite this article:
Kun Zhang(张坤), Ashley Xia(夏月), and Jin Wang(汪劲) The landscape and flux of a minimum network motif, Wu Xing 2020 Chin. Phys. B 29 120504
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[1] Zhang T M, Jia B and Liao C D2003 Chinese-English Pocket Dictionary of Traditional Chinese Medicine (People's Medical Publishing House Co., LTD) pp. 366-367 [2] Shangshu(《尚书洪范》) https://ctext.org/shang-shu/great-plan/zhs [3] Liu Z D 五行说考源中国儒学网(http://www.confuchina.com/10%20lishi/wuxing.htm) [4] Sun G R and Zheng H X2012 Basic Theories of Traditional Chinese Medicine (China Press of Traditional Chinese Medicine) pp. 42-57 (in Chinese) [5] Veith I2002 Huang TiNeiChing Su Wen, The Yellow Emperor's Classic of Internal Medicine(University of California Press, Ltd.) p. 21 [6] Zhang T M, Jia B and Liao C D2003 Chinese-English Pocket Dictionary of Traditional Chinese Medicine (People's Medical Publishing House Co., LTD) pp. 383-384 [7] Castellani B2018 Map of the Complexity Sciences Art & Science Factory (https://www.art-sciencefactory.com/complexity-map_feb09.html) [8] Aston P J, Christie M I, Huang Y H and Nandi M Physiol. Meas. 39 024001 DOI: 10.1088/1361-6579/aaa93d2018 [9] Yan H, Zhao L, Hu L, Wang X, Wang E and Wang J Proc. Natl. Acad. Sci. USA 110 E4185 DOI: 10.1073/pnas.13106921102013 [10] Valeyev N V, Hundhausen C, Umezawa Y, Kotov N V, Williams G, Clop A, et al. 2010 PLoS Comput. Biol. 6 e1001024 DOI: 10.1371/journal.pcbi.1001024 [11] Yang J H, Lin S H, Zhang Z G, Zhang G N and Wang G Y Journal of Shandong College of Traditional Chinese Medicine 19 83 (in Chinese) DOI: 10.16294/j.cnki.1007-659x.1995.02.0051995 [12] Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D and Alon U Science 298 824 DOI: 10.1126/science.298.5594.8242002 [13] Adami C, Qian J, Rupp M and Hintze A Artif Life 17 375 DOI: 10.1162/artl_a_000452011 [14] Straube R Biosystems 162 215 DOI: 10.1016/j.biosystems.2017.10.0122017 [15] Nandagopal N and Elowitz M B Science 333 1244 DOI: 10.1126/science.12070842011 [16] Mathur M, Xiang J S and Smolke C J. Cell Biol. 216 73 DOI: 10.1083/jcb.2016110022017 [17] Leung E L H, Wong V K W, Jiang Z H, Li T and Liu L2014 Integrated network-based medicine: The role of traditional Chinese Medicine in developing a new generation of medicine. The Art and Science of Traditional Medicine Part 1: TCM Today -A Case for Integration, the Science/AAAS Custom Publishing Office pp. S16-S18 [18] Yang Z F, Leung E L H, Liu L, Jiang Z H and Zhong N2014 Developing influenza treatments using traditional Chinese medicine. The Art and Science of Traditional Medicine Part 2: Multidisciplinary approaches for studying traditional medicine, the Science/AAAS Custom Publishing Office pp. S35-S37 [19] Wang J Adv. Phys. 64 1 DOI: 10.1080/00018732.2015.10370682015 [20] Li C and Wang J J. R. Soc. Interface 11 DOI: 10.1098/rsif.2014.07742014 [21] Chen C and Wang J Sci. Rep. 6 20679 DOI: 10.1038/srep206792016 [22] Li W B and Wang J J. R. Soc. Interface 15 DOI: 10.1098/Rsif.2017.01052018 [23] Wang J, Xu L and Wang E Proc. Natl. Acad. Sci. USA 105 12271 DOI: 10.1073/pnas.08005791052008 [24] Wang J, Li C and Wang E Proc. Natl. Acad. Sci. USA 107 8195 DOI: 10.1073/pnas.09103311072010 [25] Wang J, Zhang K, Xu L and Wang E Proc. Natl. Acad. Sci. USA 108 8257 DOI: 10.1073/pnas.10170171082011 [26] Li C and Wang J PLoS Comput. Biol. 9 e1003165 DOI: 10.1371/journal.pcbi.10031652013 [27] Huang C Y F and Ferrell J E Proc. Natl. Acad. Sci. USA 93 10078 DOI: 10.1073/pnas.93.19.100781996 [28] Swain P S, Elowitz M B and Siggia E D Proc. Natl. Acad. Sci. USA 99 12795 DOI: 10.1073/pnas.1620413992002 [29] Thattai M and van Oudenaarden A Proc. Natl. Acad. Sci. USA 98 8614 DOI: 10.1073/pnas.1515885982001 [30] Ideker T, Thorsson V, Ranish J A, Christmas R, Buhler J, Eng J K, Bumgarner R, Goodlett D R, Aebersold R and Hood L Science 292 929 DOI: 10.1126/science.292.5518.9292001 [31] Van Kampen N G1992 Stochastic Processes in Physics and Chemistry (Amsterdam: Elsevier Science B V) [32] Fang X, Kruse K, Lu T and Wang J Rev. Mod. Phys. 91 1 DOI: 10.1103/Revmodphys.91.0450042019 [33] Feng H and Wang J J. Chem. Phys. 135 234511 DOI: 10.1063/1.36694482011 [34] Qian H Phys. Rev. E 65 016102 DOI: 10.1103/PhysRevE.65.0161022001 [35] Alon U2006 An introduction to Systems Biology: Design Principles of Biological Circuits(Boca Raton: Chapman & Hall/CRC) [36] Chu D, Zabet N R and Mitavskiy B J. Theor. Biol. 257 419 DOI: 10.1016/j.jtbi.2008.11.0262009 [37] Sasai M and Wolynes P G Proc. Natl. Acad. Sci. USA 100 2374 DOI: 10.1073/pnas.26279871002003 [38] Ni M1995 The Yellow Emperor's Classic of Medicine (Shambhala Publications, Inc) pp. 90-94 [39] Reddy S, Reddy V and Sharma S 2020 Physiology, Circadian Rhythm In: StatPearls [Internet]. Treasure Island (FL): StatPearls Publishing [40] Li C H, Wang E K and Wang J Biophys. J. 101 1335 DOI: 10.1016/j.bpj.2011.08.0122011 [41] Wang J, Xu L and Wang E K Biophys. J. 97 3038 DOI: 10.1016/j.bpj.2009.09.0212009 [42] Wang J and Xu L and Wang E K PMC Biophys. 1 7 DOI: 10.1186/1757-5036-1-72008 [43] LuoX, Xu L, Han B and Wang J PLoS Comput. Biol. 13 e1005710 DOI: 10.1371/journal.pcbi.10057102017 [44] Li C H and Wang J Proc. Natl. Acad. Sci. USA 111 14130 DOI: 10.1073/pnas.14086281112014 [45] Wang J, Li C H and Wang E K Proc. Natl. Acad. Sci. USA 107 8195 DOI: 10.1073/pnas.09103311072010 [46] Xu L, Shi H, Feng H and Wang J J Chem. Phys 136 165102 DOI: 10.1063/1.37035142012 [47] Zhang K, Sasai M and Wang J Proc. Natl. Acad. Sci. USA 110 14930 DOI: 10.1073/pnas.13056041102013 [48] Zhang K and Wang J J. Phys. Chem. B 122 5487 DOI: 10.1021/acs.jpcb.7b118402018 [49] Elowitz M B and Leibler S Nature 403 335 DOI: 10.1038/350021252000 [50] Fang X N, Liu Q, Bohrer C, Hensel Z, Han W, Wang J and Xiao J Nat. Commun. 9 2787 DOI: 10.1038/S41467-018-05071-12018 [51] Jiang Z L, Tian L, Fang X N, Zhang K, Liu Q, Dong Q Z, Wang E K and Wang J BMC Biology 17 DOI: 10.1186/s12915-019-0666-02019 [52] Gardner T S, Cantor C R and Collins J J Nature 403 339 DOI: 10.1038/350021312000 |
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