Micro-scale (atomic level): we use tools from molecular modeling and molecular simulations to understand the physicochemical properties that govern water dynamics within biological macromolecules, intercellular communication mediated by gap-junction channels, molecular recognition and signal transduction processes mediated by GPCRs, and trans-membrane transport mediated by ligand-gated ion channels.
Meso-scale (cell level): we use network theory to infer and characterize networks underlying the structure and dynamics of a variety of biological processes such as cell signaling, gene regulation and neural coordination.
Macro-scale (population level): we use rule-based stochastic modeling to study the behavioral adaptation of artificial populations (agents) due to the flow of information produced by the spread of infectious diseases and other chaotic situations.
In general, researchers and graduate students work in:
- Molecular modeling and molecular simulations
- Protein engineering
- Computer-based drug design
- Network topology
- Stochastic modeling
- Rule-based modeling
- Formal languages (kappa)
- The regulatory code (the Regulome)