Unsupervised evolution of protein and antibody complexes with a structure-informed language model
Varun R. Shanker, Theodora U. J. Bruun, Brian L. Hie, Peter S. Kim
Laboratory of Evolutionary Design
Aligning biological AI with human good
Research Focus
Learning from nature
Human immunity is much more resilient than our antibody drugs. Learning how the immune system balances short-term protection and long-term adaptability is critical to designing robust therapeutics.
Accelerating evolution
Evolution is a powerful force, as well as a powerful adversary. By learning evolutionary rules from data, machine learning provides a way to harness this force for our benefit.
Safe biological AI
Current drug design is already outcompeted by natural evolution. Generative models must enable researchers to rapidly deploy countermeasures against harmful biology.
Publications
Sequence modeling from molecular to genome scale with Evo
Eric Nguyen, Michael Poli, Matthew G. Durrant, Armin W. Thomas, Brian Kang, Jeremy Sullivan, Madelena Y. Ng, Ashley Lewis, Aman Patel, Aaron Lou, Stefano Ermon, Stephen A. Baccus, Tina Hernandez-Boussard, Christopher Ré, Patrick D. Hsu, Brian L. Hie
BioRxiv • March 2024
Efficient evolution of human antibodies from general protein language models
Brian L. Hie, Varun R. Shanker, Duo Xu, Theodora U. J. Bruun, Payton A. Weidenbacher, Shaogeng Tang, Wesley Wu, John E. Pak, Peter S. Kim
Nature Biotechnology • April 2023
Team
Innovation Investigator
Brian Hie
Brian Hie is an Assistant Professor of Chemical Engineering at Stanford University, the Dieter Schwarz Foundation Stanford Data Science Faculty Fellow, and an Innovation Investigator at Arc Institute. He leads the Laboratory of Evolutionary Design, which conducts research at the intersection of machine learning and biology. Previously, Brian was a Stanford Science Fellow in Biochemistry, a researcher at Meta AI, received his Ph.D. in Electrical Engineering and Computer Science from MIT, and his B.S. in Computer Science from Stanford.
Current Members
PhD student
Brandon Ameglio
Stanford Biophysics, Co-advised by Anne Brunet
PhD rotation student
Yasa Baig
Stanford Bioengineering
PhD student
Garyk Brixi
Stanford Genetics
PhD student
Ashir Borah
UCSF Biomedical and Medical Informatics, Co-advised by Luke Gilbert
PhD student
Brian Kang
Stanford Bioengineering
PhD student
Samuel King
Stanford Bioengineering
PhD student
David Li
Stanford Bioengineering, Co-advised by Michael Fischbach and Karl Deisseroth
PhD student
Aditi Merchant
Stanford Bioengineering
PhD student
Eric Nguyen
Stanford Bioengineering, Co-advised by Stephen Baccus and Christopher Ré
Administrative associate
Pilita Parker
Stanford Chemical Engineering
PhD student
Talal Widatalla
Stanford Biophysics
Contact Us
Please consider joining our mission to develop safe and effective biological AI. We will also have a lot of fun along the way. If interested, you can directly join our Stanford lab or collaborate with us through a position at Arc Institute.
