Data analysis of protein interaction network modularization

doi:10.3778/j.issn.1002-8331.2010.33.012

Computer Engineering and Applications ›› 2010, Vol. 46 ›› Issue (33): 43-45.DOI: 10.3778/j.issn.1002-8331.2010.33.012

• 研究、探讨 • Previous Articles Next Articles

Data analysis of protein interaction network modularization

DIAO Hong-xiang^1，2，XIAO Jian³，CHEN Yi-ming¹

1.Information Science and Technology Institute，Hunan Agricultural University，Changsha 410128，China
2.School of Computer Science，National University of Defense Technology，Changsha 410073，China
3.Library of Hunan Agricultural University，Changsha 410128，China

Received:2009-04-28 Revised:2009-06-15 Online:2010-11-21 Published:2010-11-21
Contact: DIAO Hong-xiang

蛋白质交互网络模块化的数据分析

刁洪祥^1，2，肖健³，陈义明¹

1.湖南农业大学信息科学技术学院，长沙 410128
2.国防科学技术大学计算机学院，长沙 410073
3.湖南农业大学图书馆，长沙 410128

通讯作者: 刁洪祥

Abstract

Abstract: Modularization of biological network is a basic premise of biological systems robustness.First of all，this paper improves the classic method of spectrum based on the analysis of existing algorithms，and brings forward a strategy to enhance resolution of the modular approach.This paper uses different sources of protein network analysis to calculate property of network modularization，and finds the extent of the modularization is influenced by data source，despite these protein networks show a high degree of modularization.This paper also finds that the gene tends to be in the same module after the genome-wide copy，which shows that gene copy doesn’t produce large differences in particular.When a gene copy is deleted，another gene copy should do the compensation function in the module.

Key words: protein interaction network, modularization, method of spectrum

摘要： 生物网络的模块化是生物系统鲁棒性的一个基本前提。首先根据已有的算法分析改进了经典的谱方法，提出了一个提高模块化方法分辨率的策略。采用不同来源的蛋白质网络来计算地分析网络的模块化属性，发现尽管这些蛋白质网络都展现了较高的模块化程度，但模块化的程度受到数据来源的影响。同时还发现基因在全基因组复制以后，会倾向于在同一个模块中出现，这说明复制基因功能不会产生特别大的差异，使得当删除一个复制基因时，模块内的另一个复制基因会有功能的补偿。

关键词: 蛋白质交互网络, 模块化, 谱方法

CLC Number:

TP274

DIAO Hong-xiang^1，2，XIAO Jian³，CHEN Yi-ming¹. Data analysis of protein interaction network modularization[J]. Computer Engineering and Applications, 2010, 46(33): 43-45.

刁洪祥^1，2，肖健³，陈义明¹. 蛋白质交互网络模块化的数据分析[J]. 计算机工程与应用, 2010, 46(33): 43-45.

[1]	MAO Yimin, LIU Yinping. Algorithm for Identifying Weighted Protein Complexes Based on Modularity Function [J]. Computer Engineering and Applications, 2020, 56(2): 42-54.
[2]	WANG Hong1，2，WANG Xicheng1，3. Random walk soft clustering method for identifying overlapping functional modules in protein interaction networks [J]. Computer Engineering and Applications, 2011, 47(9): 4-7.
[3]	DING Dewu1，HUANG Haisheng1，WU Pu1，WANG Ruchuan2. Modularization analysis of biochemical network based on extreme pathway [J]. Computer Engineering and Applications, 2011, 47(33): 120-122.
[4]	HUANG Haisheng1，2，DING Dewu1，WU Pu1，2，WANG Ruchuan2. Empirical investigation of self-similarity in several human biological networks [J]. Computer Engineering and Applications, 2011, 47(16): 128-130.
[5]	HOU Ying1，LI Fengqi1，NIU Jizhen2，JIANG Houyun1. Algorithm to convert from relational schema into modularized XML schema [J]. Computer Engineering and Applications, 2011, 47(12): 122-125.
[6]	DING De-wu¹，HUANG Hai-sheng¹，WU Pu¹，WANG Ru-chuan². Application of Petri net to modularization analysis of metabolic networks [J]. Computer Engineering and Applications, 2010, 46(33): 218-220.
[7]	LIANG Guo-long，HE Xin，WEI Zhong-hui，WANG Jun. Driver development of PCIE data acquisition card [J]. Computer Engineering and Applications, 2009, 45(31): 63-65.
[8]	LI Min,CHEN Jian-er,WANG Jian-xin. Analysis of PPI network topology based on complex network theory [J]. Computer Engineering and Applications, 2008, 44(8): 20-22.
[9]	PENG Li-hong,LIAO Bo,LIU Hao. Clustering method based on protein-protein interaction network graph [J]. Computer Engineering and Applications, 2008, 44(32): 132-133.
[10]	LIU Hao,LIAO Bo,PENG Li-hong. Research of clustering algorithms in protein-protein interaction network [J]. Computer Engineering and Applications, 2008, 44(30): 142-144.

Data analysis of protein interaction network modularization

蛋白质交互网络模块化的数据分析

PDF

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 10

Recommended Articles

Metrics