Jason T. Wang

Contact Info

Title: Professor
Email: jason.t.wang@njit.edu
Office: 4211 GITC
Phone: 973-596-3396
Dept: Department of Computer Science
Webpage: http://web.njit.edu/~wangj

About Me

Jason Wang, PhD, a professor of computer science at New Jersey Institute of Technology and director of the university's Data and Knowledge Engineering Laboratory, is working on an unusual project: creating a search engine to simplify—by analysis and classification—huge amounts of biological data. With support from the National Science Foundation, Wang’s team, which includes researchers from the National Cancer Institute and Harvard University, is developing and testing a search tool for processing queries about information patterns in large databases. The search tool would facilitate drug design, protein evaluation and the classification of DNA sequences.


  • National Taiwan University, B.S., 1980.
  • University of Memphis, M.S., 1985.
  • Courant Institute of Mathematical Sciences, New York University, M.S., 1988.
  • Courant Institute of Mathematical Sciences, New York University, Ph.D., 1991.



Courses Taught

BNFO 644 Data Mining and Management in Bioinformatics

CS 744 Data Mining and Management in Bioinformatics

CS 744 Data Mining and Management in Bioinformatics

CS 734 Data Mining


CS 632 Advanced Database Systems Design

CS 632 Advanced Database Systems Design

CS 631 Database System Design

CS 631 Database System Design

Research Interests

Dr. Wang´s research interests include data mining, databases, bioinformatics, computational genomics, computational proteomics, software development, cyberinfrastructure, digital libraries, and integration informatics (data, tool, application and information integration).

His research has been supported by Novartis Pharmaceuticals Corporation, AT&T Foundation, Alfred P. Sloan Foundation, James S. McDonnell Foundation, Howard Hughes Medical Institute, U.S. Department of Defense (DoD), U.S. National Institutes of Health (NIH), and U.S. National Science Foundation (NSF). He has served as panelist and reviewer for the NSF, NIH, U.S. Department of Energy (DoE), National Aeronautics and Space Administration (NASA), National Science Council of Taiwan, National University of Singapore (Academic Research Fund), Deutsche Forschungsgemeinschaft (German Research Foundation), Austrian Science Fund, and Council of Physical Sciences of the Netherlands Organization for Scientific Research.

Research Systems

Dr. Wang has developed several research systems that perform the following functions:


  • detecting the similarity of data where the data include strings, trees, graphs, labeled points in high-dimensional space
  • and attribute-values, and the similarity is measured by a user-defined metric;
  • finding association rules in transaction databases;
  • knowledge discovery and clustering in engineering databases;
  • aligning sequence and structural data in biological databases;
  • classification in DNA and protein databases.

Selected Publications

Selected Books and Proceedings

 Proceedings of the 2003 ACM SIGKDD Workshop on Data Mining in Bioinformatics (BIOKDD 2003)


Proceedings of the 2002 ACM SIGKDD Workshop on Data Mining in Bioinformatics (BIOKDD 2002)


Proceedings of the 2001 ACM SIGKDD Workshop on Data Mining in Bioinformatics (BIOKDD 2001)


Book on Soft Computing Analysis of Biological Data


Book on Data Mining in Bioinformatics


Book on Bioinformatics


Book on Web Data Mining


Book on Biological Pattern Discovery

Selected Journal Papers

Mugdha Khaladkar, Vandanaben Patel, Vivian Bellofatto, Jeffrey Wilusz and Jason T. L. Wang, "Detecting Conserved Secondary Structures in RNA Molecules Using Constrained Structural Alignment," Computational Biology and Chemistry, Vol. 32, No. 4, August 2008, pp. 264-272. [PubMed]

Mugdha Khaladkar, Jianghui Liu, Dongrong Wen, Jason T. L. Wang and Bin Tian, "Mining Small RNA Structure Elements in Untranslated Regions of Human and Mouse mRNAs Using Structure-Based Alignment," BMC Genomics, 9:189, 2008. [PubMed]

Sen Zhang and Jason T. L. Wang, "Discovering Frequent Agreement Subtrees from Phylogenetic Data," IEEE Transactions on Knowledge and Data Engineering, Vol. 20, No. 1, January 2008, pp. 68-82. [pdf]

Mugdha Khaladkar, Vivian Bellofatto, Jason T. L. Wang, Bin Tian and Bruce A. Shapiro, "RADAR: A Web Server for RNA Data Analysis and Research," Nucleic Acids Research, Vol. 35, Web Server Issue, 2007, pp. W300-W304. [PubMed]

Jason T. L. Wang and Xiaoming Wu, "Kernel Design for RNA Classification Using Support Vector Machines," International Journal of Data Mining and Bioinformatics, Vol. 1, 2006, pp. 57-76. [pdf]

Jason T. L. Wang, Huiyuan Shan, Dennis Shasha and William H. Piel, "Fast Structural Search in Phylogenetic Databases," Evolutionary Bioinformatics, Vol. 1, October 2005, pp. 37-46. [pdf]