Projects

Final projects:

  • Our group (Abhishek Udawat, Tammy Sisodiya, Nour Abdelrahman, Nurlenden Rihan, and I) focused on targeting increased stability as a goal for engineering the L Protein. Protein Language Models (ESM2) and the analysis of sequence alignment (BLAST/ ClustalOmega) will identify conserved and variable sites and therefore inform a mutagenesis strategy. Analyses of mutated sequences Alphafold-Multimer will reveal a change in pLDDT, ipTM, which may indicate higher stability of the tail. Engineering Plan
  • Controllable Induction of Alpha-Synuclein Expression for Modeling Parkinson’s Disease When we model a disease, we introduce pathological changes through genetic manipulations. These changes produce a pathological phenotype, but frequently non-uniformly or too fast to assess possible compensatory mechanisms normally developed in patients. Parkinson’s disease is modeled in patient-derived cells cultured in 3D organoids. As in patients, an amyloid protein, a-syn, misfolds and accumulates in cells. However, months of culture are needed for pathological processes to naturally emerge, and methods that stimulate a-synuclein accumulation have two main problems: they don’t allow temporal control of α-syn load, and they don’t standardize the dose of a-syn per cell.