The immune system is nature’s engine for molecular evolution, in which an effective response can be mounted to almost any pathogenic challenge. This requires the generation and processing of a vast number of molecular signals in a short time and poses a unique challenge for computational prediction. As our tools for uncovering genetic and biochemical information about the immune system become ever more powerful, this complex system as a whole can be understood only by applying the most powerful methods for data analysis and computational modeling. Georgia Tech’s internationally recognized capabilities in computational and systems biology, high-throughput data analysis and high-performance computing are being applied to this problem in collaboration with various experimental groups.