“Give me a place to stand, and I will move the earth” Archimedis

Computational Biology @ Princeton

I have completed my PhD in the Department of Electrical Engineering at Princeton University in summer 2008 and I am currently affiliated with the Lewis-Sigler Institute for Integrative Genomics. My research interests lie in the realm of quantitative and computational biology. I am particularly interested in exploiting engineering methods to study biological systems. During my PhD, I was working in the laboratory of Saeed Tavazoie

My first experience with biological modeling and computational biology was during my M.Sc. in Columbia University, where I worked closely with professors C. Zukowski (EE) and D. Anastassiou (EE) on developing a mixed signal IC that can simulate elementary gene regulatory and biochemical networks. After coming to Princeton, I collaborated closely with professor R. Weiss (EE) on stem cell differentiation/pattern formation and worked with professor D. Tank (Molbio) on the development and implementation of a wireless implantable electrode. Additionally I worked on a few other bioinformatics projects (clustering and classification of biological data) with prof. SY Kung (EE), Y. Kang (Molbio) and prof. D. Serpanos (EE).

My PhD thesis is focused on properties of evolving networks and emergence of anticipatory behavior. In my PhD - and under the insightful guidance of my PhD advisor Saeed Tavazoie - I showed on theoretical grounds and by using large scale simulations that the structured correlations of environmental variables (eg. temperature, oxygen, osmolarity, etc.) should allow free-living microbes to statistically predict future trajectories of their environments. In collaboration with Dr. Liu, we showed that our predictions are actually valid in the case of bacterium E.Coli.

My Curriculum Vitae can be downloaded by clicking here.

Publications

Present Work

Past Work

  1. I.Tagkopoulos, D. Serpanos, "Gene Classification and Regulatory Prediction Based on Transcriptional Modeling." Proceedings, IEEE Symposium on Signal Processing and Information Technology, ISSPIT2005, Athens, Greece, 2005.
  2. I.Tagkopoulos, "A Transcriptional Approach to Gene Clustering." Proceedings, IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB2005, San Diego, California, 2005. (pdf)
  3. I.Tagkopoulos, N. Slavov, S.Y. Kung, "Multi-class Biclustering and Classification Based on Modeling of Gene Regulatory Networks." Proceedings, IEEE Symposium on Bioengineering and Bioinformatics, BIBE2005, Minneapolis, Minnesota, 2005.
  4. S.Y.Kung, M.W. Mak, and I.Tagkopoulos, "Multi-Metric and Multi-Substructure Biclustering Analysis for Gene Expression Data." Proceedings, IEEE Computational Systems Bioinformatics Conference, CSB2005, Stanford, California, 2005. (pdf)
  5. S.Y.Kung, M.W. Mak, and I.Tagkopoulos, " Multi-Metric and Multi-Substructure Biclustering Analysis for Gene Expression Data.", Journal of Bioinformatics and Computational Biology, March 2006. (invited)
  6. I.Tagkopoulos, C.Zukowski, G.Cavelier, D.Anastassiou, "A Custom FPGA for the Simulation of Gene Regulatory Networks." Proceedings, Great Lakes Symposium on VLSI, GLSVLSI2003, Washington D.C., 2003.(pdf)
  7. N.D.Zervas, I.Tagopoulos, V. Spiliotopoulos, D.Soudris, C.E.Goutis, "Comparison of DWT Scheduling Algorithms Alternatives on Programmable Platforms." Proceedings, International Symposium on Circuits and Systems, ISCAS2001, Sidney, Australia, 2001. (pdf)