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B.S.: Electrical
and Computer
Engineering, Michigan Tech., 1988
M.S.: Electrical and Computer Engineering,
Purdue, 1990
Ph.D.: Electrical and Computer Engineering,
Purdue, 1995
I am a Professor in the
Department of Computer Science and Engineering
at the University of South Carolina.
My principal research interests are the implementation of mathematical,
statistical and engineering techniques in the area of bioinformatics,
medical informatics and computational biology. A more
specific area of my active research is the problem of protein folding,
protein/ligand and protein/protein interaction.
My previous affiliation was as a project
coordinator at the Southeast Collaboratory for Structural Genomics
(SECSG) from 2000-2004.
Bio and Medical informatics
Computational Biology
Artificial Intelligence
Optimization
Parallel algorithms and architectures
South Carolina Governer's School of Science and Mathematics (Spring
2008)
CSCE
590F: Topics in Bioinformatics and Medical informatics (Fall
2004)
General topics in
Bioinformaitcs and Medical informatics will be presented in this class.
Students will be introduced to the existing tools for various analyses.
During each topic, the appropriate computational/mathematical topics
will be introduced and discussed.
CSCE
245: Object-Oriented
Programming Techniques (Spring 05, 06, 07, 08)
Advanced
object-oriented concepts and techniques; multiple inheritance; memory
management; operator overloading; polymorphism; performance issues. (Prereq:
grade of C or higher in CSCE 146)
CSCE
790R: Structural /
Protein
Bioinformatic (Fall
2005)
This
course is intended to familiarize interested investigators with
theoretical concepts and some subset of the algorithmic tools currently
utilized in the field of protein folding. Upon the completion of this
course, participants are expected to be able to embark in competitive
research in the area of structural bioinformatics.
CSCE 790S: Structural / Protein
Bioinformatic (Fall
2006)
The
focus of this course is study of computational methods of protein
folding and simulation of dynamics. This course will familiarize the
participants with MM and MD simulations. Upon the completion of this
course, participants are expected to be able to embark in competitive
research in the area of structural bioinformatics.
CSCE 790U: Structural / Protein
Bioinformatic (Fall
2007) (Syllabus)
The
focus of this course is study of computational methods of protein
folding and simulation of dynamics. This course will familiarize the
participants with MM and MD simulations. Upon the completion of this
course, participants are expected to be able to embark in competitive
research in the area of structural bioinformatics. CSCE 500: Computer Programming and Applications with PERL (Spring
2008) (Syllabus)
This course will be an
introduction to programming, with programming exercises in biological
applications such as sequence comparison, input/output, data
structures and algorithms for biology, as well as programming to
access and parse results from gene banks and protein banks. The
programming exercises assigned will be chosen to reflect the research
front of Bioinformatics and Computational Biology.
| Selected Publications Top |
- H. Valafar, Arabnia H.R., Distributed Global
Optimization and its Potential Implementation on the MultiRing Network.
Journal of Neural, Parallel and Scientific Computations, accepted (in
print).
- L. C. Morris, Valafar H., Prestegard J. H.,
Assignment of Backbone Resonances from Minimal NMR Data Using
Connectivity, Torsion Angle Constraints, and Chemical Shifts. Journal
of Biomolecular NMR 29: 1-9, 2004.
- H. Valafar, Prestegard J.H., REDCAT: A Residual
Dipolar Coupling Analysis Tool. Journal of Magnetic Resonance 167
(2004) 228-241.
- H. Valafar, Presetegard J., Rapid
Classification of a Protein Fold Family Using a Statistical Analysis of
Dipolar Couplings. Bioinformatics, 2003 Aug 12:19(12):1549-55
- Fang T, Valafar H., and Prestegard J., A
Dipolar Coupling Based Strategy for Simultaneous Resonance Assignment
and Structure Determination of Protein Backbones, Journal of the
American Chemical Society; 2001
- Al-Hashimi HM, Valafar H, et al., Variation of
molecular alignment as a means of resolving orientational ambiguities
in protein structures from dipolar couplings. J MAGN RESON 143: (2)
402-406 APR 2000.
- H. Valafar, Valafar F et al., Predicting the
effectiveness of hydroxyurea in individual sickle cell anemia patients.
ARTIF INTELL MED 18: (2) 133-148 FEB 2000.
- Valafar F, Valafar H. CCRC-Net: an
Internet-based spectral database for complex carbohydrates using
artificial neural networks search engines. TRAC-TREND ANAL CHEM 18: (8)
508-512 AUG 1999.
- Cherniak R, Valafar H, et al., Cryptococcus
neoformans chemotyping by quantitative analysis of H-1 nuclear magnetic
resonance spectra of glucuronoxylomannans with a computer-simulated
artificial neural network. CLIN DIAGN LAB IMMUN 5: (2) 146-159 MAR 1998.
Complete
list of publications
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