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Thomas Butler
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Universal critical dynamics in high resolution neuronal avalanche data
N Friedman, S Ito, BAW Brinkman, M Shimono, REL DeVille, KA Dahmen, ...
Physical review letters 108 (20), 208102, 2012
5022012
Robust ecological pattern formation induced by demographic noise
T Butler, N Goldenfeld
Physical Review E 80 (3), 030902, 2009
1672009
Fluctuation-driven Turing patterns
T Butler, N Goldenfeld
Physical Review E 84 (1), 011112, 2011
1312011
Relative rate and location of intra-host HIV evolution to evade cellular immunity are predictable
JP Barton, N Goonetilleke, TC Butler, BD Walker, AJ McMichael, ...
Nature communications 7 (1), 11660, 2016
1072016
Quorum sensing allows T cells to discriminate between self and nonself
TC Butler, M Kardar, AK Chakraborty
Proceedings of the National Academy of Sciences 110 (29), 11833-11838, 2013
802013
Evolutionary constraints on visual cortex architecture from the dynamics of hallucinations
TC Butler, M Benayoun, E Wallace, W van Drongelen, N Goldenfeld, ...
Proceedings of the National Academy of Sciences 109 (2), 606-609, 2012
562012
Identification of drug resistance mutations in HIV from constraints on natural evolution
TC Butler, JP Barton, M Kardar, AK Chakraborty
Physical Review E 93 (2), 022412, 2016
332016
Extreme genetic code optimality from a molecular dynamics calculation of amino acid polar requirement
T Butler, N Goldenfeld, D Mathew, Z Luthey-Schulten
Physical Review E 79 (6), 060901, 2009
332009
Predator-prey quasicycles from a path-integral formalism
T Butler, D Reynolds
Physical Review E 79 (3), 032901, 2009
222009
Efficiently predicting high resolution mass spectra with graph neural networks
M Murphy, S Jegelka, E Fraenkel, T Kind, D Healey, T Butler
International Conference on Machine Learning, 25549-25562, 2023
142023
Hidden biases in unreliable news detection datasets
X Zhou, H Elfardy, C Christodoulopoulos, T Butler, M Bansal
arXiv preprint arXiv:2104.10130, 2021
132021
Multi-scale sinusoidal embeddings enable learning on high resolution mass spectrometry data
G Voronov, R Lightheart, J Davison, CA Krettler, D Healey, T Butler
arXiv preprint arXiv:2207.02980, 2022
112022
MS2Mol: A transformer model for illuminating dark chemical space from mass spectra
T Butler, A Frandsen, R Lightheart, B Bargh, J Taylor, TJ Bollerman, ...
62023
MS2Prop: A machine learning model that directly generates de novo predictions of drug-likeness of natural products from unannotated MS/MS spectra
G Voronov, R Lightheart, A Frandsen, B Bargh, SE Haynes, E Spencer, ...
BioRxiv, 2022.10. 09.511482, 2022
52022
Optimality properties of a proposed precursor to the genetic code
T Butler, N Goldenfeld
Physical Review E 80 (3), 032901, 2009
22009
Horizontal Gene Transfer and the Emergence of Darwinian Evolution
TC Butler
12006
The Renormalization Group as a Method for Analyzing Differential Equations
TC Butler
12005
The kinetics and location of intra-host HIV evolution to evade cellular immunity are predictable
J Barton, N Goonetilleke, T Butler, B Walker, A McMichael, A Chakraborty
APS March Meeting Abstracts 2016, F35. 012, 2016
2016
Data collapse and critical dynamics in neuronal avalanche data
T Butler, N Friedman, K Dahmen, J Beggs, L Deville, S Ito
APS March Meeting Abstracts 2012, L41. 002, 2012
2012
Fluctuation-driven Turing patterns in predator-prey dynamics
T Butler, N Goldenfeld
APS March Meeting Abstracts 2012, C1. 274, 2012
2012
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