Evaluation of attractors and basins of asynchronous random Boolean networks

被引:24
|
作者
Yang, Meng [1 ]
Chu, Tianguang [1 ]
机构
[1] Peking Univ, Coll Engn, State Key Lab Turbulence & Complex Syst, Beijing 100871, Peoples R China
来源
PHYSICAL REVIEW E | 2012年 / 85卷 / 05期
关键词
D O I
10.1103/PhysRevE.85.056105
中图分类号
O35 [流体力学]; O53 [等离子体物理学];
学科分类号
070204 ; 080103 ; 080704 ;
摘要
We present an algebraic approach for determining the attractors and their basins of random Boolean networks under an asynchronous stochastic update based on the recently developed matrix semitensor product theory, which allows for converting the logical dynamics of a Boolean network into a standard iterative dynamics. In this setting, all attractors and basins are specified by the network transition matrices. We then devise procedures that can find all attractors and their basins exactly. We also discuss the issue of overlapping basins in asynchronous random Boolean networks, and we propose methods to compute the weight of each attractor and the basin entropy of the systems.
引用
收藏
页数:6
相关论文
共 50 条
  • [21] Uncovering Dynamic Structures Within Cyclic Attractors of Asynchronous Boolean Networks with Spectral Clustering
    Yousefian, Maryam
    Tonello, Elisa
    Frank, Anna-Simone
    Siebert, Heike
    Roblitz, Susanna
    COMPUTATIONAL METHODS IN SYSTEMS BIOLOGY, CMSB 2024, 2024, 14971 : 226 - 246
  • [22] Attractors in Boolean networks: a tutorial
    Hopfensitz, Martin
    Muessel, Christoph
    Maucher, Markus
    Kestler, Hans A.
    COMPUTATIONAL STATISTICS, 2013, 28 (01) : 19 - 36
  • [23] On Observability of Attractors in Boolean Networks
    Qiu, Yushan
    Cheng, Xiaoqing
    Ching, Wai-Ki
    Jiang, Hao
    Akutsu, Tatsuya
    PROCEEDINGS 2015 IEEE INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOMEDICINE, 2015, : 263 - 266
  • [24] Asynchronous Simulation of Boolean Networks by Monotone Boolean Networks
    Melliti, Tarek
    Regnault, Damien
    Richard, Adrien
    Sene, Sylvain
    CELLULAR AUTOMATA, ACRI 2016, 2016, 9863 : 182 - 191
  • [25] Dynamics of asynchronous random Boolean networks with asynchrony generated by stochastic processes
    Deng, Xutao
    Geng, Huimin
    Matache, Mihaela Teodora
    BIOSYSTEMS, 2007, 88 (1-2) : 16 - 34
  • [26] Computing Attractors of Large-Scale Asynchronous Boolean Networks Using Minimal Trap Spaces
    Van-Giang Trinh
    Hiraishi, Kunihiko
    Benhamou, Belaid
    13TH ACM INTERNATIONAL CONFERENCE ON BIOINFORMATICS, COMPUTATIONAL BIOLOGY AND HEALTH INFORMATICS, BCB 2022, 2022,
  • [27] Stability of Asynchronous Boolean Networks
    Li, Zhiqiang
    Xiao, Huimin
    2014 INTERNATIONAL CONFERENCE ON ADVANCED MECHATRONIC SYSTEMS (ICAMECHS), 2014, : 496 - 500
  • [28] Stable and unstable attractors in Boolean networks
    Klemm, K
    Bornholdt, S
    PHYSICAL REVIEW E, 2005, 72 (05):
  • [29] Common Attractors in Multiple Boolean Networks
    Cao, Yu
    Pi, Wenya
    Lin, Chun-Yu
    Munzner, Ulrike
    Ohtomo, Masahiro
    Akutsu, Tatsuya
    IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2023, 20 (05) : 2862 - 2873
  • [30] On Attractor Detection and Optimal Control of Deterministic Generalized Asynchronous Random Boolean Networks
    Giang, Trinh Van
    Hiraishi, Kunihiko
    IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2022, 19 (03) : 1794 - 1806