I'm interested in modeling, simulation and engineering of complex biological systems, especially those of protein-protein or protein-ligand interactions. We have developed a protein docking method SDU (Paschalidis et al., 2007) based on stochastic global optimization of funnel-shaped free energy functions. Its successful application (Shen et al.) further validates the concept of protein docking funnels and recalls the model of molecular association through a series of micro-collisions. I plan to build SDU into our docking server .
I'm also interested in protein-ligand interactions, drug design and metabolic engineering. Please check my website for more details