Yiannis Kaznessis Ph.D.
Research Areas: Computer modeling of biological systems, Synthetic bioengineering, Molecular recognition phenomena, Gene Regulatory NetworksThe completion of the Human Genome Project is a magnificent milestone for humankind. It is, however, merely the harbinger of a revolution in biomedicine that will drastically benefit the health of humans. The deciphering of principles that guide nature to express itself from protein sequence to structure and function, and then on to protein-protein interactions, and to the circuitry of cells, will not only provide us with deep understanding of the secrets of life, but will also allow us to control such biological phenomena as cell differentiation and cell death.
Our research efforts integrate biophysical computations and synthetic biology methods for characterizing and engineering biomolecular systems. From molecules, such as antimicrobial peptides, to gene regulatory networks, such as novel bio-logical AND gates, we are developing model-driven designs that are experimentally realizable with exciting biotechnological and biomedical applications.
EducationDiploma, Chemical Engineering, Aristotle University of Thessaloniki, 1994; Ph.D., Chemical Engineering, University of Notre Dame, 1999
Important ArticlesComputer-aided design of modular protein devices: Boolean AND gene activation. (with H. Salis) Physical Biology, 3(4):295-310. (2006)
Driving engineering of novel antimicrobial peptides from simulations of peptide-micelle interactions. (with H. Khandelia and A. Langham) Biochim Biophys Acta. 1758(9):1224-34. (2006)
Retrocyclins kill bacilli and germinating spores of Bacillus anthracis and inactivate anthrax lethal toxin. (with Wang, Mulakala, et al.) J Biol Chem. 281(43):32755-64. (2006)
Synthetic tetracycline-inducible regulatory networks: computer-aided design of dynamic phenotypes (with V. Sotiropoulos) BMC Systems Biology, 1:7, (2007)
Accurate Hybrid Stochastic Simulation of a System of Coupled Chemical or Biochemical Reactions (with H. Salis) Journal of Chemical Physics, 122, 054103 (2005)
Molecular Dynamics Simulations of the N-terminus of HIV GP-41 Fusion Peptide in SDS Micelles (with A. Langham) Journal of Peptide Science, 14( 2): 316-328 (2005)
Inferring Gene Regulatory Relationships by Combining Target-Target Pattern Recognition and Regulator-Specific Motif Examination (with H. Wei) Biotechnology and Bioengineering, Vol. 89(1), p. 52-77, (2005)
Prediction of distant residue contacts with the use of evolutionary information (with S. Vicatos and V.B. Reddy) Proteins, Bioinformatics, Structure and Genetics, 58 (4): 935-49 (2005)
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