Harvard Medical School professor and SFI external professor, Walter Fontana and colleagues have created Cellucidate, a new tool to help biologists uncover general principles about cellular signaling. Cellucidate would turn network diagrams of signaling pathways into living and breathing systems. Fontana mixed Kappa, a computer language “tuned to express basic interactions between proteins,” with a method called “coarse-graining” into computational models. By coarse-graining under Kappa’s rules, an automated compression is formed, filtering out permutations that have no bearing on the current model. The goals of Cellucidate include modeling and simulation to speed drug discovery and cure cancer. Fontana also helped found a company called Plectix BioSystems which provides a shared online space for scientists to use Cellucidate. Fontana adds, “Plectix wants to be the Facebook of proteins…where scientists will make models collaboratively.”

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