Computational Modeling of Vertebrate Phototransduction
THE SMITH-KETTLEWELL EYE RESEARCH INSTITUTE

Ali Navid , Ph.D.

Postdoctoral Fellow

Research Interests

  • Computational modeling of vertebrate rod and cone responses
  • Molecular modeling of light-induced changes in crystalline structure of phototransduction proteins
  • Experimental measurement of light induced physiological changes in rods and cones
  • Theoretical simulation of metabolism in Eukaryotic cells

Education

2004 Ph.D. in Chemistry, Indiana University
1998 M.S. in Chemistry, University of North Dakota
1992 B.S. in Chemistry, University of Maryland

Experience

1998-2004
Graduate assistant, Indiana University

Developed fully kinetic computational models of metabolic pathways for single and multi-organism eukaryotic cells, designed a new biochemical database, gained extensive experience in programming in C++, Fortran and mining available chemical and biological databases.

1995-1998 Graduate assistant, University of North Dakota

Studied the mechanism of catalytic autoxidation of acidic and basic thiols by cobalt terasulphophthalocyanine using a variety of analytical tools.

1991-1993 Undergraduate research assistant

Examined the feasibility of using Evaporative Light Scattering Detectors as a universal mass detection tool.

Publications

Fan, J., Navid, A., Tuncay, K., Ortoleva, P. Cellular Reaction-Transport Dynamics: Multi-Scale Asymptotic Analysis and Numerical Simulation Approach. Submitted to Physical Review E. for publication.

Navid, A., Ortoleva, P.J. Simulations of Heterogeneous Populations of Eukaryotic Cells Using a Fully Kinetic Cellular Simulator. Submitted to Journal of Mathematical Biology for publication.

Navid, A., Ortoleva, P.J. Simulated Complex Dynamics of Glycolysis in the Protozoan Parasite Trypanosoma brucei. (2004), Journal of Theoretical Biology, 228, 449-458.

Ortoleva, P., E. Berry, J. Fan, M. Fontus, A. Navid, A. Sayyed-ahmad, Z. Shreif, F. Stanley, K. Tuncay, L. Wu, E. Weitzke. Karyote Physico-Chemical Genome, Proteome, Metabolome Cell Modeling System. (2003), Omics, 7(3), 269-283.

Navid, A., Tyapochkin, E.M., Archer, C.J., Kozliak, E.I. UV-vis and Binding Studies of cobalt terasulphophthalocyanine-thiolate Complexes as intermediates of the Merox Process. (1999), Journal of porphyrins and phthalocyanines, 3(6-7), 654-666.

Navid, A., Kozliak, E.I. Stable Co(III) and Co(II) Complexes of cobalt tetrasulphophthalocyanine with Acidic thiols. (1997), Abstr. Pap. Am. Chem. Soc. 214(131), Inorganic Part 1.

Kozliak, E.I., Navid, A. Mechanism of the cobalt phthalocyanine Catalyzed Autoxidation of Aliphatic thiols. (1997), Abstr. Pap. Am. Chem. Soc. 213(17), Fuel Part 1.


Contact Information

Smith-Kettlewell Eye Research Institute
2318 Fillmore St.
San Francisco, CA 94115
(415) 345-2087

anavid@ski.org