Machine Learning and Statistics

• Spectral clustering , PCA extensions, Nonnegative Matrix Factorization
• Markov Chain Monte Carlo, Kalman filter

• Protein Fold Recognition, Gene expression clustering and ordering
• Minimum Redundancy - Maximum Relevance (mRMR) Feature Selection
• Gene Regulation Network, Protein Complex Detection

Information Retrieval

• Link Analysis, Web clustering, Latent Semantic Indexing

• MPH: Distributed Memory Multi-Component Environment , Optimal Multi-dimensional array remapping
• Climate Model Algorithmic R&D , ZioLib: A Parallel I/O Library
• Mesh/graph partitioning

Professional Service ......

• Associate Editor for Int'l Journal of Data Mining and Bioinformatics (Link)
• 6th Computational Systems Bioinformactics Conference (CSB'07), Program Committee
• Int'l Conf. on Knowledge Discovery and Data Mining (KDD'07), Program Committee
• European Conf. on Machine Learning (ECML'06), Program Committee
• Int'l Conf. on Knowledge Discovery and Data Mining (KDD'06), Program Committee Senior Member
• Int'l Conf. on Machine Learning (ICML'06), Program Committee

Proposal Review/Panels ......

• National Science Foundation, Computer & Information Sciencen and Engineering.
  April 2004; March, April 2005; July 2006; February, April 2007 ...
• National Science Foundation of Ireland, 2005.
• Research Grants Council of Hong Kong, 2007.

• Book: Spectral Clustering, Ordering and Ranking --- Statistical Learning with Matrix Factorizations
  by Chris Ding and Hongyuan Zha.
  Publisher: Springer. Approx. 400 p. 60 illus., 20 in colour. Hardcover. ISBN: 0-387-30448-7. Not yet published. Available July 2007.
  Description and table of content: Springer website.

Bioinformatics
• Multi-class Protein Fold Recognition Using Support Vector Machines and Neural Networks (Paper , data).
• A Unified Representation for Multi-Protein Complex Data for Modeling Protein Interaction Networks (PDF).
• Comparative mapping of sequence-based and structure-based protein domains (paper online).
• Minimum Redundancy - Maximum Relevance Feature Selection (PDF).

  High Performance Computing

• Coupling Multi-Component Models with MPH on Distributed Memory Computer Architectures (PDF).
• MPI and OpenMP Paradiagms on Cluster of SMP Architecture: the Vacancy Tracking Algorithm for Multi-Dimensional Array Transpose (PDF).
• A Ghost Cell Expansion Method for Reducing Communications in Solving PDE Problems (PDF).
• Using Accurate Arithmetics to Improve Numerical Reproducibility and Stability in Parallel Applications (PDF).

  Web and Text Information Retrieval

• Link Analysis: Hubs and Authorities on the World Wide Web (PDF).
• PageRank, HITS and a Unified Framework for Link Analysis (PS).
• Web Document Clustering Using Hyperlink Structures (PS).
• A Probabilistic Model for Latent Semantic Indexing (PS).

  Machine Learning and Multivariate Statistics

• Two-dimensional Singular Value Decomposition (2DSVD) for 2D Maps and Images (PDF).
• On the Equivalence of Nonnegative Matrix Factorization and Spectral Clustering (PDF).

• Dynamic Cluster Formation Using Level Set Methods (PDF).
• Cluster Aggregate Inequality and Multi-Level Hierarchical Clustering (PS).

• K-means Clustering via Principal Component Analysis. (PDF).
• Linearized Cluster Assignment via Spectral Ordering (PDF).