Jack Simon's repositories
protein-topology-analysis
Computational pipeline for analyzing topological effects of protein mutations through contact map analysis, binding pocket identification, and LLM analysis.
agentic-dimer-inhibition
Protein design pipeline that generates miniprotein inhibitors to prevent mutant receptor tyrosine kinase dimerization.
Language:Python000
agentic-enzyme-design
Autonomous enzyme design system that combines agentic literature search with AlphaGo-style exploration to discover novel enzyme scaffolds around conserved catalytic triads.
Language:Python000
protein-protein-affinity
Agentic system for designing miniproteins that bind to protein dimer interfaces, increasing the likelihood that two proteins remain bound together.
Language:Python000
rare-medical-llms
RAG app for appendiceal adenocarcinoma.
Language:TypeScript000
technology-tree
Agent that traverses the tech tree.
Language:Python000