Technical Skills

Protein Design

  • DDG

  • Protein / protein affinity modulation

  • Protein stabilization

  • Protein stabilization w/introduced disulfides

  • Linker design for fusion proteins

  • De novo helical backbone design


Protein Structure Modeling

  • Protein / protein docking

  • Loop modeling

  • Linker modeling

  • Small molecule druggability analysis


Protein Structure Prediction

  • Ab initio structure prediction

  • Homology modeling of globular proteins

  • Homology modeling of protein / protein complexes

  • Homology modeling w/ specified templates


Programming/Software

  • ROSETTA, MOE, Schrodinger (Maestro)

  • Java

  • C++

  • Matlab

  • Python, PyTorch

  • Bash/Linux/Vim


X-ray

  • Crystal screening using Mosquito

  • Crystal optimization - standing drop, sitting drop, temperature, additives, seeding, soaks

  • Diffraction - ALS Lawrence Berkeley National Laboratory, NSLS-II Brookhaven National Laboratory

  • Data processing & refinement - XDS, molecular replacement, Phenix, Coot


Protein purification

  • Molecular cloning - primer design, vector design, restriction cloning, blunt end cloning, Gibson cloning

  • Expression - E. coli, mammalian (HEK293)

  • Purification - sonication, microfluidizer, Ni/Co gravity columns Akta SEC

  • Analysis - SEC-MALS, CD, SAXS, X-ray

  • Modifications - non-canonical amino acid incorporation, lysine labeling


Mammalian cell culture, transfection, & characterization

  • HEK, HeLa, U2-OS, Jurkat cell culture

  • Non-viral & lentiviral transfection/transduction of DNA/siRNA

  • Flow cytometry, multicolor FlowJo analysis

  • Confocal & TIRF microscopy