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John Ingraham
John Ingraham
Generate Biomedicines, Inc
Verified email at csail.mit.edu - Homepage
Title
Cited by
Cited by
Year
Mutation effects predicted from sequence co-variation
TA Hopf, JB Ingraham, FJ Poelwijk, CPI Schärfe, M Springer, C Sander, ...
Nature Biotechnology 35 (2), 128-135, 2017
3942017
Deep generative models of genetic variation capture the effects of mutations
AJ Riesselman, JB Ingraham, DS Marks
Nature Methods 15, 816-822, 2018
2682018
Basketball teams as strategic networks
JH Fewell, D Armbruster, J Ingraham, A Petersen, JS Waters
PloS one 7 (11), e47445, 2012
2042012
3D RNA and Functional Interactions from Evolutionary Couplings
C Weinreb, AJ Riesselman, JB Ingraham, T Gross, C Sander, DS Marks
Cell 165 (4), 963-975, 2016
1482016
Generative Models for Graph-Based Protein Design
J Ingraham, VK Garg, R Barzilay, T Jaakkola
Neural Information Processing Systems, 2019
1412019
Structured States of Disordered Proteins from Genomic Sequences
A Toth-Petroczy, P Palmedo, J Ingraham, TA Hopf, B Berger, C Sander, ...
Cell 167 (1), 158-170. e12, 2016
1222016
Galactose metabolic genes in yeast respond to a ratio of galactose and glucose
R Escalante-Chong, Y Savir, SM Carroll, JB Ingraham, J Wang, CJ Marx, ...
Proceedings of the National Academy of Sciences 112 (5), 1636-1641, 2015
1052015
Defining variant-resistant epitopes targeted by SARS-CoV-2 antibodies: A global consortium study
KM Hastie, H Li, D Bedinger, SL Schendel, SM Dennison, K Li, ...
Science 374 (6566), 472-478, 2021
1042021
The EVcouplings Python framework for coevolutionary sequence analysis
TA Hopf, AG Green, B Schubert, S Mersmann, CPI Schärfe, JB Ingraham, ...
Bioinformatics 35 (9), 1582-1584, 2019
1002019
Learning Protein Structure with a Differentiable Simulator
J Ingraham, A Riesselman, C Sander, D Marks
International Conference on Learning Representations, 2019
982019
Cellbox: Interpretable machine learning for perturbation biology with application to the design of cancer combination therapy
B Yuan, C Shen, A Luna, A Korkut, DS Marks, J Ingraham, C Sander
Cell systems 12 (2), 128-140. e4, 2021
46*2021
Variational Inference for Sparse and Undirected Models
J Ingraham, D Marks
International Conference on Machine Learning, 2017
35*2017
Generating transition states of isomerization reactions with deep learning
L Pattanaik, JB Ingraham, CA Grambow, WH Green
Physical Chemistry Chemical Physics 22 (41), 23618-23626, 2020
212020
Probabilistic Models of Structure in Biological Sequences
JB Ingraham
PQDT-Global, 2018
12018
Path analysis of vocally-mediated intergroup spacing strategies in mantled howling monkeys
J Ingraham, AL Schreier
AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 144, 173-174, 2011
2011
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