IDEAS home Printed from https://ideas.repec.org/a/eee/chsofr/v119y2019icp171-179.html
   My bibliography  Save this article

Realizing the transformation of logic gates in a genetic toggle system under Lévy noise

Author

Listed:
  • Wu, Juan
  • Xu, Yong
  • Ma, Shaojuan

Abstract

This paper aims to investigate the different logic gates and its transformation in a genetic toggle system under square wave signal and Lévy noise. The logical information transmission of the repressive protein concentrations of the genetic toggle system are studied. The logic gates NOR/OR for the repressive protein concentration are explored by the logic relationships. Also, the transformation from the logic gates NOR/OR to logic gates NAND/AND is explored through the adjustment of system parameters and Lévy noise parameters. What's more, the logic latch gates NSGN/SNG are also explored for the information storage. According to the obtained logic gates NOR/OR and NAND/AND and the logic latch gates NSGN/SNG of the repressive protein concentration, the two-dimensional logical success probability of the logical information transmission concerning the pairwise parameters of stability index, skewness parameter and noise intensity of Lévy noise are analyzed respectively. The effects of those Lévy noise parameters on the logical information transmission for the obtained logic gates are analyzed. In addition, the logical stochastic resonance is studied in the genetic toggle system. It is found that Lévy noise with the certain intensity can greatly induce logical stochastic resonance, and optimally promote the logical information transmission for the realized logic gates of NOR/OR and NAND/AND and the logic latch gates NSGN/SNG.

Suggested Citation

  • Wu, Juan & Xu, Yong & Ma, Shaojuan, 2019. "Realizing the transformation of logic gates in a genetic toggle system under Lévy noise," Chaos, Solitons & Fractals, Elsevier, vol. 119(C), pages 171-179.
    • Handle: RePEc:eee:chsofr:v:119:y:2019:i:c:p:171-179
    DOI: 10.1016/j.chaos.2019.01.002
    as

    Download full text from publisher

    File URL: http://www.sciencedirect.com/science/article/pii/S0960077918307860
    Download Restriction: Full text for ScienceDirect subscribers only
    File URL: https://libkey.io/10.1016/j.chaos.2019.01.002?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    References listed on IDEAS

    as
    1. Aleksander Janicki & Aleksander Weron, 1994. "Simulation and Chaotic Behavior of Alpha-stable Stochastic Processes," HSC Books, Hugo Steinhaus Center, Wroclaw University of Technology, number hsbook9401, December.
    2. Xu, Yong & Zhu, Ya-nan & Shen, Jianwei & Su, Jianbin, 2014. "Switch dynamics for stochastic model of genetic toggle switch," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 416(C), pages 461-466.
    3. Liu, Kaihe & Jin, Yanfei, 2013. "Stochastic resonance in periodic potentials driven by colored noise," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(21), pages 5283-5288.
    4. Surya G Nurzaman & Yoshio Matsumoto & Yutaka Nakamura & Kazumichi Shirai & Satoshi Koizumi & Hiroshi Ishiguro, 2011. "From Lévy to Brownian: A Computational Model Based on Biological Fluctuation," PLOS ONE, Public Library of Science, vol. 6(2), pages 1-11, February.
    5. Timothy S. Gardner & Charles R. Cantor & James J. Collins, 2000. "Construction of a genetic toggle switch in Escherichia coli," Nature, Nature, vol. 403(6767), pages 339-342, January.
    6. Attila Becskei & Luis Serrano, 2000. "Engineering stability in gene networks by autoregulation," Nature, Nature, vol. 405(6786), pages 590-593, June.
    7. Juan Wu & Yong Xu & Jun Ma, 2017. "Lévy noise improves the electrical activity in a neuron under electromagnetic radiation," PLOS ONE, Public Library of Science, vol. 12(3), pages 1-13, March.
    8. Xu, Yong & Wu, Juan & Du, Lin & Yang, Hui, 2016. "Stochastic resonance in a genetic toggle model with harmonic excitation and Lévy noise," Chaos, Solitons & Fractals, Elsevier, vol. 92(C), pages 91-100.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Gui, Rong & Li, Jiaxin & Yao, Yuangen & Cheng, Guanghui, 2021. "Effect of time-delayed feedback in a bistable system inferred by logic operation," Chaos, Solitons & Fractals, Elsevier, vol. 148(C).
    2. Gui, Rong & Wang, Yue & Yao, Yuangen & Cheng, Guanghui, 2020. "Enhanced logical vibrational resonance in a two-well potential system," Chaos, Solitons & Fractals, Elsevier, vol. 138(C).
    3. Cheng, Guanghui & Liu, Weidan & Gui, Rong & Yao, Yuangen, 2020. "Sine-Wiener bounded noise-induced logical stochastic resonance in a two-well potential system," Chaos, Solitons & Fractals, Elsevier, vol. 131(C).

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Xu, Yong & Wu, Juan & Du, Lin & Yang, Hui, 2016. "Stochastic resonance in a genetic toggle model with harmonic excitation and Lévy noise," Chaos, Solitons & Fractals, Elsevier, vol. 92(C), pages 91-100.
    2. Jin, Yanfei & Wang, Heqiang, 2020. "Noise-induced dynamics in a Josephson junction driven by trichotomous noises," Chaos, Solitons & Fractals, Elsevier, vol. 133(C).
    3. Simeon D. Castle & Michiel Stock & Thomas E. Gorochowski, 2024. "Engineering is evolution: a perspective on design processes to engineer biology," Nature Communications, Nature, vol. 15(1), pages 1-10, December.
    4. Tobias May & Lee Eccleston & Sabrina Herrmann & Hansjörg Hauser & Jorge Goncalves & Dagmar Wirth, 2008. "Bimodal and Hysteretic Expression in Mammalian Cells from a Synthetic Gene Circuit," PLOS ONE, Public Library of Science, vol. 3(6), pages 1-7, June.
    5. Alex J. H. Fedorec & Neythen J. Treloar & Ke Yan Wen & Linda Dekker & Qing Hsuan Ong & Gabija Jurkeviciute & Enbo Lyu & Jack W. Rutter & Kathleen J. Y. Zhang & Luca Rosa & Alexey Zaikin & Chris P. Bar, 2024. "Emergent digital bio-computation through spatial diffusion and engineered bacteria," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    6. Luca Cardelli & Rosa D Hernansaiz-Ballesteros & Neil Dalchau & Attila Csikász-Nagy, 2017. "Efficient Switches in Biology and Computer Science," PLOS Computational Biology, Public Library of Science, vol. 13(1), pages 1-16, January.
    7. Zhou, Peipei & Cai, Shuiming & Liu, Zengrong & Chen, Luonan & Wang, Ruiqi, 2013. "Coupling switches and oscillators as a means to shape cellular signals in biomolecular systems," Chaos, Solitons & Fractals, Elsevier, vol. 50(C), pages 115-126.
    8. Graham Rockwell & Nicholas J Guido & George M Church, 2013. "Redirector: Designing Cell Factories by Reconstructing the Metabolic Objective," PLOS Computational Biology, Public Library of Science, vol. 9(1), pages 1-15, January.
    9. Sara Hooshangi & William E Bentley, 2011. "LsrR Quorum Sensing “Switch” Is Revealed by a Bottom-Up Approach," PLOS Computational Biology, Public Library of Science, vol. 7(9), pages 1-11, September.
    10. Feng, Jing & Xu, Wei & Xu, Yong & Wang, Xiaolong, 2018. "Phase transition and alternation in a model of perceptual bistability in the presence of Lévy noise," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 512(C), pages 367-378.
    11. Avraham E Mayo & Yaakov Setty & Seagull Shavit & Alon Zaslaver & Uri Alon, 2006. "Plasticity of the cis-Regulatory Input Function of a Gene," PLOS Biology, Public Library of Science, vol. 4(4), pages 1-1, March.
    12. Chen Jia & Ramon Grima, 2024. "Holimap: an accurate and efficient method for solving stochastic gene network dynamics," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    13. Stefano Ciliberti & Olivier C Martin & Andreas Wagner, 2007. "Robustness Can Evolve Gradually in Complex Regulatory Gene Networks with Varying Topology," PLOS Computational Biology, Public Library of Science, vol. 3(2), pages 1-10, February.
    14. Makoto Maejima & Gennady Samorodnitsky, 1999. "Certain Probabilistic Aspects of Semistable Laws," Annals of the Institute of Statistical Mathematics, Springer;The Institute of Statistical Mathematics, vol. 51(3), pages 449-462, September.
    15. Lombardi, Marco J. & Calzolari, Giorgio, 2009. "Indirect estimation of [alpha]-stable stochastic volatility models," Computational Statistics & Data Analysis, Elsevier, vol. 53(6), pages 2298-2308, April.
    16. Foad Shokrollahi & Marcin Marcin Magdziarz, 2020. "Equity warrant pricing under subdiffusive fractional Brownian motion of the short rate," Papers 2007.12228, arXiv.org, revised Nov 2020.
    17. Furrer, Hansjorg & Michna, Zbigniew & Weron, Aleksander, 1997. "Stable Lévy motion approximation in collective risk theory," Insurance: Mathematics and Economics, Elsevier, vol. 20(2), pages 97-114, September.
    18. Michna, Zbigniew, 2008. "Asymptotic behavior of the supremum tail probability for anomalous diffusions," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 387(2), pages 413-417.
    19. Tomas Tokar & Jozef Ulicny, 2013. "The Mathematical Model of the Bcl-2 Family Mediated MOMP Regulation Can Perform a Non-Trivial Pattern Recognition," PLOS ONE, Public Library of Science, vol. 8(12), pages 1-8, December.
    20. Nolan, John P., 1998. "Parameterizations and modes of stable distributions," Statistics & Probability Letters, Elsevier, vol. 38(2), pages 187-195, June.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:eee:chsofr:v:119:y:2019:i:c:p:171-179. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Thayer, Thomas R. (email available below). General contact details of provider: https://www.journals.elsevier.com/chaos-solitons-and-fractals .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.