Publications from the Beckman Institute
Browse the peer-reviewed articles and computational methods developed by the Theoretical and Computational Biophysics Group.
Most molecular biology papers skip the code. We don't.
Every publication from our group includes the algorithms and tools that produced the results. You can run the simulations yourself, not just read about them.
Do our tools actually hold up in real labs?
Researchers around the world rely on our algorithms and modeling frameworks. Here is what they report back.
We adopted NAMD for our membrane protein simulations last year. The parallel scaling let us run systems we could not touch before. The documentation alone saved us weeks of setup time.
Dr. Priya Mehta
Postdoctoral Researcher, Structural Biology Lab, Stanford
VMD is the only visualization tool we trust for trajectory analysis on our GPU cluster. It handles multi-million atom systems without crashing. That is not hyperbole — it just works.
Dr. Alistair Finch
Computational Biophysicist, Max Planck Institute
The tutorial on steered molecular dynamics saved our collaboration. We went from zero to a working pulling simulation in two days. That kind of documentation is rare in this field.
Dr. Yuki Tanaka
Assistant Professor, Biophysics, University of Tokyo
Shots from 36 years of molecular research
A look at the workstations, whiteboards, and simulation environments where our group develops structural biology tools.
See the impact of our work
Decades of research in macromolecular modeling and bioinformatics, measured in publications, citations, and tools built.
35+
Founded in 1989, we've been advancing structural biology ever since.
500+
Published in leading journals across biophysics, chemistry, and computer science.
100+
From NAMD to VMD, our tools power molecular dynamics worldwide.
10K+
Our work is read, used, and built upon by researchers globally.
Common questions about our publications
Practical answers to the questions researchers ask us most often.
Work with the Beckman Institute team
Share your research challenge and see if our tools and algorithms fit what you are building.