Strategy-Driven Exploration for Rule-Based Models of Biochemical Systems with PORGY.

This chapter presents PORGY-an interactive visual environment for rule-based modelling of biochemical systems. We model molecules and molecule interactions as port graphs and port graph rewrite rules, respectively. We use rewriting strategies to control which rules to apply, and where and when to apply them.

Will biologists become computer scientists? A truly interdisciplinary effort by computer scientists and biologists to understand how cells process information may yield new insights for both fields.

Though made from different materials, cells and computers are both information‐processing machines. Computer science could help biologists to better understand how cells sense, process and adapt to cues from their environment. [Image: see text]