JCVI: About / Bios / Andrey Tovchigrechko
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Andrey Tovchigrechko, Ph.D.
Assistant Professor

Research Interests and Accomplishments

Andrey Tovchigrechko is an Assistant Professor in the Bioinformatics Program.  He has a broad background in computational biology and applied mathematics, with expertise in the development of macromolecular modeling methods, protein structural databases, machine learning software for metagenomics and molecular dynamics.  His postdoctoral work and subsequent research at the Stony Brook University and the University of Kansas focused on development of protein-protein docking methods (Gramm-X) and protein structural databases (DOCKGROUND and GWIDD). He carried out the first large scale protein docking evaluations on a simulated benchmark of homology models.  When working in the Lab of Dr. Ilya Vakser, Dr. Tovchigrechko created Gramm-X protein docking software, as well as a public docking server, which he currently maintains as a service to the research community.  Dr. Tovchigrechko is currently a PI of an NSF award aimed at developing a parallel software package MGTAXA for assigning taxonomy to metagenomic samples with machine learning methods. This effort is also supported by a resource allocation on NSF TeraGrid Ranger cluster.  He is a PI on an NSF award to develop a client-cloud application for protein-protein docking on Microsoft Azure platform. This work is supported by a resource allocation from Microsoft. He also participates in various large collaborative metagenomic projects at the Venter Institute.

Dr. Tovchigrechko received his Ph.D. in Biophysics from the Moscow Institute of Physics and Technology in Russia in 1996, and carried out postdoctoral work in Molecular Modeling at both the Kurnakov Institute of General and Inorganic Chemistry of the Russian Academy of Science in Moscow, and the Medical University of South Carolina in Charleston.

Select Publications

Yooseph, S., Nealson, K. H., et al.
Genomic and Functional Adaptation In Surface Ocean Planktonic Prokaryotes

Nature. 2010 Nov 04; 468(7320): 60-6.[more]

Gao, Y., Douguet, D., et al.
DOCKGROUND System of Databases for Protein Recognition Studies: Unbound Structures for Docking

Proteins. 2007 Dec 01; 69(4): 845-51.[more]

Tovchigrechko, A., Vakser, I. A.
GRAMM-X Public Web Server for Protein-protein Docking

Nucleic Acids Res. 2006 Jul 01; 34(0): W310-4.[more]

Tovchigrechko, A., Wells, C. A., et al.
Docking of Protein Models

Protein Sci. 2002 Aug 01; 11(8): 1888-96.[more]