蛋白质相互作用网络特征的理论再现  

Emergence of features in protein-protein interaction networks

作　　者：万茜[1] 周进[1] 刘曾荣[2] 

机构地区：[1]上海大学上海市应用数学与力学研究所,上海200072 [2]上海大学系统生物技术研究所,上海200444

出　　处：《物理学报》2012年第1期15-22,共8页Acta Physica Sinica

基　　金：国家自然科学基金(批准号:10832006;10972129;11172158);上海市重点学科(批准号:S30104)资助的课题~~

摘　　要：无标度性、小世界性、功能模块结构及度负关联性是大量生物网络共同的特征.为了理解生物网络无标度性、小世界性和度负关联性的形成机制,研究者已经提出了各种各样基于复制和变异的网络增长模型.在本文中,我们从生物学的角度通过引入偏爱小复制原则及变异和非均匀的异源二聚作用构建了一个简单的蛋白质相互作用网络演化模型.数值模拟结果表明,该演化模型几乎可以再现现在实测结果所公认的蛋白质相互作用网络的性质:无标度性、小世界性、度负关联性和功能模块结构.我们的演化模型对理解蛋白质相互作用网络演化过程中的可能机制提供了一定的帮助.Scale-free connectivity,small-world pattern,hierarchical modularity and disassortative mixing are prominent features shared by most biological networks.Up to now,various network growth models invoking gene duplication and divergence have been proposed to understand the evolutionary mechanisms shaping the scale-free connectivity,small-world pattern and disassortative mixing.In this paper,we present an evolutionary model by introducing a rule of small preference duplication of a node and sequently divergence plus non-uniform heterodimerization meaning that the probability that an heterodimerization link is added between duplicated nodes is proportional to the number of common neighbors shared by these nodes based on biological background,showing that our model can almost display series of topological characteristics of real protein interaction networks,such as scale-free connectivity,small-world pattern,disassortativity of degree-degree correlation and hierarchical modularity.Our model may yield relevant insights into the evolutionary mechanism of protein interaction networks behind it.

关 键 词：蛋白质相互作用网络 偏爱小 非均匀的异源二聚作用 功能模块结构 

分 类 号：O157.5[理学—数学]