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个人信息Personal Information
教授
博士生导师
硕士生导师
性别:女
毕业院校:大连理工大学
学位:博士
所在单位:计算机科学与技术学院
学科:计算机应用技术
办公地点:创新园大厦B811
联系方式:0411-84706009-2811
电子邮箱:wangjian@dlut.edu.cn
PC-SENE: A node embedding based method for protein complex detection
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论文类型:会议论文
发表时间:2018-01-01
收录刊物:CPCI-S
页面范围:191-192
关键字:protein complex; PPI network; seed-extension method; node embedding
摘要:With the accumulation of protein-protein interaction (PPI) datasets, various computational methods have been developed for identifying protein complexes from PPI networks. However, many exiting computational methods have their own limitations: supervised learning approaches need tedious effort for feature engineering and the quality measures used to guide the mining process of unsupervised methods have some drawbacks in reflecting the properties of a protein complex in PPI networks. In this work, we proposed a novel protein complex detection method, named PC-SENE. For given seeds, it uses alias sampling strategy based on protein node embedding similarities to select potential addable nodes, and makes use of a new conductance measure to decide whether to extend current candidate subgraph in order to find protein complexes. Intuitively, a well trained node embedding vector could preserve both the topological characteristics of the PPI network and the diversity of connectivity patterns of nodes in the network, and thus node embedding similarities can better reflect the relationship between nodes. The experimental results show the robustness and effectiveness of PC-SENE.