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Shihua Zhang

Dr. Rui-Sheng Wang

王瑞省 博士

Academy of Mathematics and Systems Science, CAS
Address: No.55, Zhongguancun East road, Beijing 100080, China
Tel: 86-10-62571860


Shihua Zhang was born on May, 1980 in Shandong Province, China. Now he is a third year PhD student in Operations Research of the Institute of Applied Mathematics, Academy of Mathematics and Systems Science, at CAS. His interests are within Bioinformatics and Systems Biology, particularly in Biological network-related issues. He has published over 15 technical papers in the refereed journals and conference proceedings such in Proteomics, Bioinformatics, Computational Biology and Chemistry, BMC Structural Biology, Physical Review E, European Physical Journal B, Physica A.

Educational Background

Research Interests

Selected Publications

  1. Clustering complex networks and biological networks by Nonnegative Matrix Factorization with various similarity measures
    • Rui-Sheng Wang, Shihua Zhang, Yong Wang, Xiang-Sun Zhang, Luonan Chen
    • Neurocomputing, in review

Research Projects

Index and Journals


  1. Shihua Zhang, Rui-Sheng Wang and Xiang-Sun Zhang. Uncovering fuzzy community structure in complex networks. Physical Review E, 76, 046103, 2007.
  • Shihua Zhang, Guanxu Jin, Xiang-Sun Zhang and Luonan Chen. Discovering functions and revealing mechanisms at molecular level from biological networks. Proteomics, 7(16), 2856-69, 2007.
  • Zhenping Li*, Shihua Zhang*, Yong Wang, Xiang-Sun Zhang and Luonan Chen. Alignment of molecular networks by integer quadratic programming. Bioinformatics, doi:10.1093/bioinformatics/btm156. (*Co-first authors).
  • Shihua Zhang, Xue-Mei Ning and Xiang-Sun Zhang. Graph kernels, hierarchical clustering, network community structure: experiment and comparative analysis. Eur. Phys. J. B, 57, 67-74, 2007.
  • Shihua Zhang, Ruisheng Wang, and Xiang-Sun Zhang. Identification of Overlapping Community Structure in Complex Networks Using Fuzzy c-means Clustering. Physica A: Statistical Mechanics and its Applications, 374(1), 483-490, 2007.
  • Shihua Zhang, Xue-Mei Ning and Xiang-Sun Zhang. Identification of functional modules in a PPI network by clique percolation clustering. Computational biology and chemistry, 30(6), 445-451, 2006.
  • Shihua Zhang, Hong-Wei Liu, Xue-Mei Ning and Xiang-Sun Zhang. A Graph-Theoretic Method for Mining Functional Modules in Large Sparse Protein Interaction Networks. ICDMW, 130-135, Sixth IEEE International Conference on Data Mining-Workshops (ICDMW'06), 2006. (Acceptance Ratio: 28.0%)
  • Luonan Chen, Ling-Yun Wu, Yong Wang, Shihua Zhang and Xiang-Sun Zhang. Revealing Divergent Evolution, Identifying Circular Permutations and Detecting Active-Sites by Protein Structure Comparison. BMC Structural Biology, 2006, 6:18.
  • Shihua Zhang, Xue-Mei Ning, Hong-Wei Liu, and Xiang-Sun Zhang. Prediction of protein complexes based on protein interaction data and functional annotation data using kernel methods. Lecture Notes in Bioinformatics, 4115, 514-524, 2006.
  • Zhenping Li, Yong Wang, Shihua Zhang, Xiang-sun Zhang and Luonan Chen. Alignment of Protein Interaction Networks by Integer Quadratic Programming. IEEE EMBC06, SaD03.4, 5527-5530, 2006.
  • Luonan Chen, Ling-Yun Wu, Ruiqi Wang, Yong Wang, Shihua Zhang and Xiang-Sun Zhang. Comparison of Protein Structures by Multi-Objective Optimization. Genome Informatics, 16(2), 114-124, 2005.
  • Shihua Zhang, De-Gang Liu and Xiang-Sun Zhang. A framework for structural similarity search in proteins. ISORA05, Lecture Notes in Operations Research, 5, 285-295, 2005.
  • Shihua Zhang and Xiang-Sun Zhang. Visualization of conformational space based on CA-CA distance. Chinese journal of Bioinformatics, 4, 153-156, 2006.

How to

"The whole of science is nothing more than a refinement of everyday thinking." ——Einstein

"In science, the important thing is to modify and change one’s ideas as science advances."——Herbert Spencer (1820–1903)

"The good life is one inspired by love and guided by knowledge." ——Betrand Russell

"The difficulty lies, not in the new ideas, but in escaping the old ones, which ramify, for those brought up as most of us have been, into every corner of our minds.." ——John Maynard Keynes (1883 - 1946)

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