Amy E. Keating
Professor of Biology and Biological Engineering
B.A. Harvard (physics) 1992
Ph.D. UCLA (physical organic chemistry) 1998
Postdoctoral training with Peter S. Kim and
Bruce Tidor, MIT
Joined MIT faculty in 2002
Faculty Spotlight: Amy Keating
Bringing computers into the protein fold
CV
PhD Candidates
Current Lab Members
Lindsey Guan
I'm working on computational methods for designing highly target-selective peptide binders, and I'm interested in interpretable machine learning.
Ellen Irving
I’m working on multivalency in the context of short linear motif binding focusing on the activation of the E3 ubiquitin ligase Itch.
Cora Wendlandt
Cyclotides are small, cyclic plant proteins renowned for their exceptional stability against heat, pH, and proteolysis. My project aims to enhance cyclotide yeast surface display through integrated computational tools to streamline binder discovery, affinity maturation, and developability optimization.
Foster Birnbaum
I develop machine learning models for protein design. I work on models that learn sequence-energy landscapes conditioned on protein structure and use the learned energy landscapes to design novel protein sequences and predict the effects of mutations. I also work on facilitating the design of new protein structures by, for example, developing a method that assesses sequence-structure compatibility.
Haley Goodwin
I am working on SLiM prediction and design.
Jessie Gan
I am working on peptide binder designs and modeling SLiM biophysics.
Postdoctoral Scientists
Joel Sexton
I study domain peptide-peptide interactions using photo activatable cross linkers that label binding site motifs.
Jackson Halpin
I build computational peptide-design approaches to generate inhibitors of challenging protein–protein interfaces. A key theme in my research is engineering conformationally pre-organized peptides that bind more tightly to target proteins
Sergei Kotelnikov
I develop computational methods for structural modeling of proteins and their interactions. In particular, I aim to enrich methodology with machine learning models that incorporate prior physical and geometric knowledge of the problem. Using these methods, I seek to gain insight into the molecular mechanisms underlying cellular processes and potential ways to modulate them. MIT News
Lab Alumni
Jen Kosmatka, Ph.D.
Dia Ghose, Ph.D.
Avinoam Singer, Ph.D.
Sebastian Swanson, Ph.D.
Fiona Aguilar, Ph.D.
Theresa Hwang, Ph.D.
Justin Jenson, Ph.D.
Vincent Xue, Ph.D.
Glenna Wink Foight, Ph.D.
Jen Kaplan, Ph.D.
Christopher Negron, Ph.D.
Orr Ashenberg, Ph.D.
Aaron Wade Reinke, Ph.D.
T. Scott Chen, Ph.D.
Nora Zizlsperger, Ph.D.
Emiko Fire, Ph.D.
Karl Gutwin, Ph.D.
James Apgar, Ph.D.
Gevorg Grigoryan, Ph.D.
Christina Taylor, Ph.D.
Mindren Lu, MS Electrical Eng & Computer Science
Danny Park, MS Computer Science
Kevin Weston, MS Computer Science
Postdoctoral Scientists
Dustin Britton, Ph.D.
Israel Desta, Ph.D.
Federica Rigoldi, Ph.D.
Tirtha Mandal, Ph.D.
Dustin Whitney, Ph.D.
Won Min Park, Ph.D.
Vincent Frappier, Ph.D.
Raheleh Rezaei Araghi, Ph.D.
Jeremy Curuksu, Ph.D.
Joe DeBartolo, Ph.D.
Karl Hauschild, Ph.D.
Vladimir Potapov, Ph.D.
Lothar Reich, Ph.D.
Yong Ho Kim, Ph.D.
Jaylene Ollivierre, Ph.D.
Sanjib Dutta, Ph.D.
Josh Sims, Ph.D.
Suengsoo Hahn, Ph.D.
Xiaoran Fu, Ph.D.
Taijiao Jiang, Ph.D.
Kelly Elkins, Ph.D.
Jiangang Chen, Ph.D.
John Newman, Ph.D.
Undergraduate Students
Undergraduate Research Opportunities Program (UROP)
Alex Li
Amogh Bhatnagar
Venkatesh Sivaraman
Charlie Nodus
Lily Bailey
Madeleine Duran
Alyssa Chen
Daniel Richman
Tejas Navaratna
Priya Veeraraghavan
Skanda Koppula
Judy Baek
Sahar Alkhairy
Stephanie Su
Hector Palacios
Emmanuel de los Santos
Shirin Pillay (Grossman)
Sara Mouradian
Alejandro Ochoa
Devoot Majumdar
Steven Wang
MIT Summer Research Program (MSRP)
Vincent Artuso
Ellen Erving
Alejandra Ramos*
Meucci Ilunga*
Hana Flores*
Nomongo Dorjsuren
Hector Nieves-Rosado
Luis Martinez
Daniel Packer
Nathan Lawless
Rachit Neupane
Russell Goodman
Wilfredo Garcia-Beltran
Jason Tan
Larry Hendrix
HHMI/MIT
Visiting Student
Technical Associate
Kate Rosen-Gagnon
Eliza Genilo
*Student who returned to the lab for a longer stay after the MSRP summer program
Molly Carney
Michael Schneider
Nicolas Levinson
Bonnie Su
Hongwei Zhu
Lindsey Stretz
Jeremy Fisher