University of Delaware - College of Engineering
COMPUTER & INFORMATION SCIENCES

Research


Core Research Area in Bioinformatics

Bioinformatics is a growing area of research interest in the Department of Computer and Information Sciences at the University of Delaware. The department, an active participant in the Delaware Biotechnology Institute, has five faculty members currently engaged in research in this area, applying their expertise in machine learning, distributed artificial intelligence, computer vision, and natural language processing to address a wide variety of biological problems.

In addition, the Department of Computer and Information Sciences is also the academic home of the Center for Bioinformatics & Computational Biology (CBCB). The CBCB is an interdisciplinary, cross-campus and inter-institutional initiative for the Delaware research and education community, and is built on the Bioinformatics core at the Delaware Biotechnology Institute (DBI) and the Bioinformatics infrastructure of the Protein Information Resource (PIR). Students who are interested in Bioinformatics can apply directly to the Graduate programs in Bioinformatics and Computational Biology. These programs are administered through the Department of Computer & Information Sciences, and are coordinated by the CBCB.

Current projects include identifying protein homologues such as immune system enhancers and transporter proteins, building automated annotation systems, inferring genetic networks and their evolution, analyzing images of microarrays, and protein docking, and text-mining information such as protein-protein and protein-drug interactions from biomedical literature. These projects are supported by grants from NSF, NIH, USDA, and the US Army.

Learn about Bioinformatics Labs


Current CIS Faculty

John Case, Professor: Functional; Comparative genomics; Machine learning.

Keith Decker, Associate Professor: Automated information gathering and integration; Data mining/extraction; Gene networks and pathways.

Chandra Kambhamettu, Professor: Protein docking; Image analysis; Visualization for bioinformatics applications.

Li Liao, Associate Professor: Functional; Comparative genomics; Gene networks and pathways; Machine learning.

Vijay Shanker, Professor: Text mining; Information extraction; Machine learning.

Hagit Shatkay, Associate Professor (joint appointment with Center for Bioinformatics & Computational Biology and Biomedical Engineering): Computational biology; Medical informatics; Bioinformatics; Machine learning; Data and text mining, and their various combinations.

Michela Taufer, Assistant Professor (joint appointment with Center for Bioinformatics & Computational Biology and Biomedical Engineering): Protein-ligand docking; RNA secondary structure predictions.

Cathy Wu, Edward G. Jefferson Chair of Bioinformatics and Computational Biology: Biological Text Mining; Biological Ontology; Computational Systems Biology; Protein Structure-Function-Network Analysis; Bioinformatics Cyberinfrastructure

CBCB Faculty

The CBCB program has a close collaboration among participating Departments across many Colleges. Therefore, program faculty members are from various participating disciplines in these departments.

Courses

CISC 636 Bioinformatics
CISC 637 Database Systems
CISC 681 Artificial Intelligence
CISC 841 Bioinformatics
CISC 849 Computational Biomedicine
CISC 887 Internet Information Gathering
CISC 889 Advanced Topics: Bioinformatics
CISC 889 Advanced Topics: Machine Learning
CISC 889 Advanced Topics: Modeling and Simulation for Bioinformatic Systems

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