Computationally Driven Genetically Engineered Materials

May 26, 2021
Development of protein biomaterials that are capable of self-assembly into hydrogels has potential in biomedical applications including drug delivery and tissue engineering. A two-stage architecture, called DeepFRI, has been recently developed where functional salinity is established by training its algorithm on annotated structures from PDB and SWISS-MODEL and applying weighted class activation mapping of residues that are critical to function (Fig. 1). Similarly, a two-stage architecture has been developed to help understand the driving mechanism for gelation of coiled-coil proteins that will enable the design of new materials with desired phase-behavior. To this end, we have studied the conditional properties of self-assembly of Q using high-throughput micro-rheology and begun developing not only improved variants of Q, but a machine learning algorithm program that will quantify the metrics that drive self-assembly and provide optimum sequence design for improved gelation and material properties for a coiled-coil. Results of this work will provide insight into the driving mechanisms for new polymeric materials and provide a platform for their design. From a database of coiled-coil sequences derived from a randomized Monte-Carlo search algorithm, sequence will be matched to electrostatic potential which will be used to map the time to gelation using a subset of variants that fill the compositional space of electrostatic patches (Fig. 2 highlights the qualitative results thus far using classifiers gel and no gel).

Authors

J. Montclare, R. Bonneau, Y. Wadghiri (NYU)

Additional Materials

Designing Materials to Revolutionize and Engineer our Future (DMREF)