Mapping and characterization of two relevance networks from SNP and gene levels  

作　　者：Wei Jiang a,1, Lijie Zhang b,1, Bo Na a, Lihong Wanga, Jiankai Xu a, Xia Li a,b,c, Yadong Wangb, Shaoqi Rao da College of Bioinformatics Science and Technology and Bio-pharmaceutical Key Laboratory of Heilongjiang Province, Harbin Medical University, Harbin 150081, China b Department of Mathematics and Computer Science, Harbin Institute of Technology, Harbin 150080, China c Department of Bioinformatics, Capital University of Medical Sciences, Beijing 100084, China d Department of Cardiovascular Medicine and Molecular Cardiology, The Cleveland Clinic Foundation, 9600 Euclid Avenue, Cleveland, OH 44195, USA 

出　　处：《Progress in Natural Science:Materials International》2009年第5期653-657,共5页自然科学进展·国际材料（英文版）

基　　金：supported by the National Natural Science Foundation of China (Grant Nos. 30370798,30571034 and 30570424);the National Hi-Tech Research and Development Program of China (Grant No.2007AA02Z329);the National Program on Key Basic Research Projects (Grant No. 2008CB517302)

摘　　要：Variations of gene expression and DNA sequence are genetically associated. The goal of this study was to build genetic networks to map from SNPs to gene expressions and to characterize the two different kinds of networks. We employed mutual information to evaluate the strength of SNP-SNP and gene-gene associations based on SNPs identity by descent (IBD) data and differences of gene expressions. We applied the approach to one dataset of Genetics of Gene Expression in Humans, and discovered that both the SNP relevance network and the gene relevance network approximated the scale-free topology. We also found that 12.09% of SNP-SNP interactions matched 24.49% of gene-gene interactions, which was consistent with that of the previous studies. Finally, we identified 49 hub SNPs and 115 hub genes in their relevance networks, in which 27 hub SNPs were associated with 25 hub genes.Variations of gene expression and DNA sequence are genetically associated. The goal of this study was to build genetic networks to map from SNPs to gene expressions and to characterize the two different kinds of networks. We employed mutual information to evaluate the strength of SNP-SNP and gene-gene associations based on SNPs identity by descent （IBD） data and differences of gene expressions. We applied the approach to one dataset of Genetics of Gene Expression in Humans, and discovered that both the SNP relevance network and the gene relevance network approximated the scale-free topology. We also found that 12.09% of SNP-SNP interactions matched 24.49% of gene-gene interactions, which was consistent with that of the previous studies. Finally, we identified 49 hub SNPs and 115 hub genes in their relevance networks, in which 27 hub SNPs were associated with 25 hub genes.

关 键 词：SNP relevance network Gene relevance network Network mapping Network topology 

分 类 号：Q75[生物学—分子生物学]