Gene Prioritization for Type 2 Diabetes in Tissue-specific Protein Interaction Networks

摘要：

Computationally prioritizing disease genes by large-scale bio-experimental data can provide important insights into the underlying mechanism of complex diseases. Here, we explore the topology of the protein-protein interaction network and apply the PageRank algorithm to identify candidate genes relating to type 2 diabetes. Importantly, a novel idea is introduced to rank the disease genes in tissue-specific protein-protein interaction networks instead of the global protein interaction network. To this end, we extend the original PageRank algorithm by adopting a block-based strategy. The leave-one-out cross validation is conducted to evaluate the performances of all ranking algorithms. The resulting ROC curves show that the proposed method with tissue-specific information performs better than original PageRank algorithm in the global protein-protein interaction network and each subnetwork of single tissue. Finally, four candidate genes are highlighted for further experimental validation due to their higher scores.

关键词： PageRank protein-protein interaction network tissue-specificity type 2 diabetes

作者: Biao-Bin Jiang Ji-Guang Wang Jing-Fa Xiao Yong Wang

作者单位: School of Chemical Engineering & Environment,Beijing Institute of Technology,Beijing 100081,China Academy of Mathematics and Systems Science,Chinese Academy of Science,Beijing 100190,China Beijing Institute of Genomics,Chinese Academy of Science,Beijing 100029,China

会议类型: 国际会议

会议名称: The 3rd International Symposium on Optimization and System Biology(第三届最优化与系统生物学国际会议 OSB09)

会议地点: 张家界

会议语种:英文

页码: 319-328

在线出版日期: 2009-09-20（万方平台首次上网日期，不代表论文的发表时间）