This thesis project focused on using a sequence-based, high-performance computational tool to design synthetic proteins and is part of current collaborative research on Duchenne Muscular Dystrophy (DMD). A possible treatment for DMD consists of injecting patients with healthy muscle satellite cells grown in tissue culture. However, such cells cannot currently be produced in quantity because they convert to muscle cells (differentiate) prematurely. Using InSiPS, the In-Silico Protein Synthesizer, protein sequences were designed to interact with target proteins and inhibit the protein-protein interaction proposed to regulate the premature differentiation. The resulting sequences were predicted to interact with the target proteins with high specificity (99.98%). Complementary biochemistry experiments indicated interactions with the intended target for two out of ten synthetic proteins. These results are being studied as part of the ongoing research seeking to develop a treatment for DMD.