Sikao Guo, Ph.D.

Computational biophysicist and research software engineer with 6+ years developing methods and reusable software for molecular modeling and high-performance scientific computing.

U.S. Permanent Resident · No sponsorship required

Experience

Research & software development.

Jul. 2025 – Present

Inria

Research Engineer

Sophia Antipolis, France

Developed a modular C++/Python sampler for protein loops, fragments, and intrinsically disordered regions, with flexible endpoints and residue-specific Ramachandran priors.
Built an all-atom validation workflow with side-chain reconstruction, OpenMM minimization, and conformational-quality checks.
Created AutoCLIP to generate PyMOL, VMD, and web applications from reusable specifications; deployed nine structural-biology tools.
Built cross-platform testing, CI/CD, reproducible packaging, and authenticated web deployment.

Jan. 2020 – Jun. 2025

Johns Hopkins University

Assistant Research Scientist (2025); Postdoctoral Fellow (2020–2024)

Baltimore, Maryland

Modeled clathrin self-assembly, reproducing experimental kinetics and explaining why lattices fail to stabilize without sufficient adaptor proteins.
Identified a binding-affinity range that permits HIV Gag/Gag-Pol lattice stability and remodeling on experimentally observed viral-maturation timescales.
Led C++/MPI development of NERDSS, achieving approximately 90× speedup on 96 CPUs for a 20,000-particle benchmark; validated distributed behavior across seven benchmark models.
Built ioNERDSS structure-to-simulation workflows benchmarked on 44,000+ structures and assemblies of 3–720 subunits.

Sep. 2014 – Dec. 2019

Institute of Physics, Chinese Academy of Sciences

Doctoral Researcher

Beijing, China

Combined stochastic simulation, molecular dynamics, and umbrella sampling to reproduce experimental motility measurements and explain coordination between kinesin heads.

Education