计算机科学 ›› 2010, Vol. 37 ›› Issue (1): 211-213.

• 人工智能 • 上一篇    下一篇

基于复杂网络模型的基因调控网络的计算模拟

张律文,谢江,陈建娇,张武   

  1. (上海大学计算机工程与科学学院 上海200072);(上海大学系统生物技术研究所 上海200444)
  • 出版日期:2018-12-01 发布日期:2018-12-01
  • 基金资助:
    本文受上海市重点学科建设项目(项目编号:J50703),上海大学系统生物研究基金(2008-5)资助。

Artificial Gene Regulatory Networks Construction Based on Complex Network

ZHANG Lu-wen,XIE Jiang,CHEN Jian-jiao,ZHANG Wu   

  • Online:2018-12-01 Published:2018-12-01

摘要: 随着大通量基因芯片数据的产生,基因调控机制的网络化研究需求日趋迫切。提出了基于复杂网络理论的基因调控网络的模拟方法,构建了基因调控网络模拟器GN-Simulator。通过分析真实基因调控网络的拓扑特性,提出了对应的矩阵模型,并充分考虑了网络的生物学鲁棒性和动力学稳定性,给出了人工基因网络的生成过程和计算模拟方法。计算实验表明,GN-Simulator能高效地模拟出与真实基因调控网络高度相似的大规模人工网络,并可为不同算法提供无偏验证的多样化人工模拟数据。

关键词: 复杂网络,无标度特性,动力学稳定性,模拟,基因调控网络

Abstract: Along with the explosion of high-throughput genomic information produced from such as DNA microarrays,modeling the mechanism of gene regulations and constructing gene regulatory network become an urgent task. We proposed a novel method, GN-Simulator, to simulate gene regulatory networks based on complex network theory. The real gene networks were modeled explicitly in matrixes based on the scale-free topology. According to the robust biological mechanism,we constructed artificial gene regulatory networks related topology to the dynamic stability. We considered the features of real gene network structures into the artificial system The computing experiments illustrate that GN-Simulator can simulate largcscale gene networks efficiently with high confidence level. Moreover, GN-Simulator generates various synthetic networks for testifying different algorithms performance and provides reasonable estimation on them.

Key words: Complex network, Scale-free topology, Dynamic stability, Simulation, Uene regulatory network

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