Research Interest
Current Research Topics:
URA automated mass annotation of proteins, Mass Spectra Proteomics Informatics, Semantic Web, Description Logics, Ontology Engineering, Temporal Database, Network Security, High Performance Computing, Bioinformatics, Data Integration

Past Research Topics:
Non-destructive Integrity Evaluation in Micro-piles, Petroleum Geology, Structural Geology, Geophysics

Current Projects
  • Unified Rule Application (URA)
    URA automated annotation project uses UniRules which describe conditional annotation templates (UniRules) to define annotation which can be gener ated for (selected) predicted features. The goal of this research is to build a system, which can automatically annotate millions of TrEMBL protein sequence entries.

  • Literature Mining of Pathogenesis-Related Proteins in Human Pathogens for Database Annotation
    To develop an automated text mining system to facilitate literature-based curation of pathogenesis-related proteins in pathogens of military relevance.

  • Omics Data Integration
    To develop systematic statistical and computational methods to adequately integrate Omics data to support Meta-analysis of multiple high-throughput biological experiments.

Research Experience
December 2008 - present
Department of Computer and Information Sciences, Center for Bioinformatics and Computational Biology, Delaware Biotechnology Institute, University of Delaware, Newark DE, USA
  • URA automated mass annotation of proteins
  • Funded by National Human Genome Research Institute and National Institutes of Health, grant #U01 HG02712-04
  • Mass Spectra based Proteomics Informatics

January 2007 - December 2008
Department of Computer Science and Engineering, University of South Carolina, Columbia SC, USA
  • Worked on various reasoning and management issues related to design, maintenance and evolution of very large Description Logics based ontology
  • Designed and developed a scalable and efficient manage framework for engineering very large Description Logics based ontology
  • Extended Description Logic SHIQ with temporal logic to reason the evolution of ontology and developed related tableau-based reasoning algorithm
  • Developed and implemented a suite of metrics for evaluating the semantic implications of changes in evolving ontologies
  • Categorized the types of changes in the OWL ontologies and their semantic implications

January 2006 - December 2006
Department of Biostatistics, Bioinformatics and Epidemiology, Medical University of South Carolina, Charleston SC, USA
  • Studied whether any cooperative regions of brain activate together and such activity correlates to the deception activity
  • Developed a parallel Bayesian probabilistic component analysis algorithm for fMRI deception data analysis

May 2004 - December 2005
Department of Biostatistics, Bioinformatics and Epidemiology, NHLBI Proteomics Center, Medical University of South Carolina, Charleston SC, USA
  • Funded by NHLBI MUSC Proteomics Center (N01-HV-28181)
  • Developed and maintained web-based infrastructure for proteomics data management and analysis
  • Designed and developed a universal LIMS (Laboratory Information Management System) (http://www.s3db.org)
  • Developed a tool for visualizing 2D gel electrophoresis data (http://www.agml.org)

June 2003 - May 2004
Department of Computer Science and Engineering, University of South Carolina, Columbia SC, USA
  • Designed a dual authentication protocol for IEEE 802.11 wireless LANs

August 2000 - August 2001
Department of Civil Engineering, University of South Carolina, Columbia SC, USA
  • Studied the non-destructive integrity evaluation in micro-piles
  • Designed and developed the multi-channel non-destructive integrity evaluation program