Construction and Analysis of Genome-wide SNP Networks
The study of gene regulatory network (GRN) and protein protein interaction network (PPI) is believed to be fundamental to the understanding of molecular processes and functions in system biology and therefore,attracted more and more attentions in past few years.However,there is little focus about network construction in single nucleotide polymorphism (SNP) level,which may provide a direct insight into mutations among individuals,potentially leading to new pathogenesis discovery and diagnostics.In this paper,we present a novel method to mine,model and evaluate a SNP sub-network from SNP-SNP interactions.Specifically,based on logistic regression between two SNPs,we first construct a genome-wide SNP-SNP interaction network.Then by using gene information,selected SNP seeds are employed to detect SNP sub-networks with a maximal modularity.Finally to identify functional role of each SNP sub-network,its gene association network is constructed and their functional similarity values are calculated to show the biological relevance.Results show that our method is effective in SNP sub-network extraction and gene function prediction.
Yang Liu Jin Zhou Zhiping Liu Luonan Chen Michael K. Ng
Department of Mathematics, Hong Kong Baptist University, Kowloon Tong, Hong Kong School of Information Science and Engineering, University of Jinan, Jinan, Shandong, China Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China Centre for Mathematical Imaging and Vision, Department of Mathematics, Hong Kong Baptist University,
国际会议
6th International Conference on Systems Biology (第六届国际系统生物学会议)(ISB2012)
西安
英文
327-332
2012-08-19（万方平台首次上网日期，不代表论文的发表时间）