Chittaranjan Tripathy
My research interests lie in the study of protein folding mechanisms of denatured proteins and in the protein loop closure problem.
A thorough understanding of the protein folding process is hinged on an accurate characterization and modeling of the denatured state. My research focuses on developing a computational framework that can model the denatured state accurately and can facilitate the folding simulation studies starting from the denatured state. My work is built upon the framework developed in [1].
I am also very much interested in the protein loop closure problem. I've been trying to use deep mathematical concepts from robotics as well as experimental data from NMR spectroscopy to develop novel data-driven algorithms that can compute an ensemble of candidate loops that fit the best to the missing parts of a given protein backbone structure.
References
- A Data-Driven, Systematic Search Algorithm for Structure Determination of Denatured or Disordered Proteins. L. Wang and B. R. Donald. The Computational Systems Bioinformatics Conference (CSB), Stanford CA. (August, 2006) Pages 67-78. ISBN 1-86094-700-X.
- [2] A Polynomial-Time Algorithm for De Novo Protein Backbone Structure Determination from NMR Data. L. Wang, R. Mettu and B. R. Donald. Journal of Computational Biology 2006; 13(7): 1276-1288.