John P Barton
John P Barton
Assistant Professor, Department of Physics and Astronomy, University of California, Riverside
Verified email at ucr.edu - Homepage
Title
Cited by
Cited by
Year
Paired quantitative and qualitative assessment of the replication-competent HIV-1 reservoir and comparison with integrated proviral DNA
JCC Lorenzi*, YZ Cohen*, LB Cohn, EF Kreider, JP Barton, GH Learn, ...
Proceedings of the National Academy of Sciences 113 (49), E7908–E7916, 2016
1322016
The fitness landscape of HIV-1 gag: advanced modeling approaches and validation of model predictions by in vitro testing
JK Mann*, JP Barton*, AL Ferguson*, S Omarjee, BD Walker, ...
PLoS Computational Biology 10 (8), e1003776, 2014
1262014
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, 11660, 2016
812016
ACE: adaptive cluster expansion for maximum entropy graphical model inference
JP Barton†, E De Leonardis, A Coucke, S Cocco†
Bioinformatics 32 (20), 3089-3097, 2016
802016
Spin models inferred from patient-derived viral sequence data faithfully describe HIV fitness landscapes
K Shekhar, CF Ruberman, AL Ferguson, JP Barton, M Kardar, ...
Physical Review E 88 (6), 062705, 2013
762013
Fitness landscape of the human immunodeficiency virus envelope protein that is targeted by antibodies
RHY Louie*, KJ Kaczorowski*, JP Barton, AK Chakraborty, MR McKay
Proceedings of the National Academy of Sciences, 201717765, 2018
692018
Deconstruction of the Ras switching cycle through saturation mutagenesis
P Bandaru, NH Shah, M Bhattacharyya, JP Barton, Y Kondo, JC Cofsky, ...
Elife 6, e27810, 2017
672017
Relationship between latent and rebound viruses in a clinical trial of anti–HIV-1 antibody 3BNC117
YZ Cohen, JCC Lorenzi, L Krassnig, JP Barton, L Burke, J Pai, CL Lu, ...
Journal of Experimental Medicine 215 (9), 2311-2324, 2018
592018
Role of framework mutations and antibody flexibility in the evolution of broadly neutralizing antibodies
V Ovchinnikov*, JE Louveau*, JP Barton*, M Karplus, AK Chakraborty
eLife 7, e33038, 2018
492018
Relationship between intact HIV-1 proviruses in circulating CD4+ T cells and rebound viruses emerging during treatment interruption
CL Lu, JA Pai, L Nogueira, P Mendoza, H Gruell, TY Oliveira, J Barton, ...
Proceedings of the National Academy of Sciences 115 (48), E11341-E11348, 2018
472018
Ising models for neural activity inferred via selective cluster expansion: structural and coding properties
J Barton, S Cocco
Journal of Statistical Mechanics: Theory and Experiment 2013 (03), P03002, 2013
412013
Characterization of intact proviruses in blood and lymph node from HIV-infected individuals undergoing analytical treatment interruption
LK Vibholm, JCC Lorenzi, JA Pai, YZ Cohen, TY Oliveira, JP Barton, ...
Journal of Virology 93 (8), 2019
322019
Scaling laws describe memories of host–pathogen riposte in the HIV population
JP Barton, M Kardar, AK Chakraborty
Proceedings of the National Academy of Sciences 112 (7), 1965-1970, 2015
312015
Large pseudocounts and L2-norm penalties are necessary for the mean-field inference of Ising and Potts models
JP Barton, S Cocco, E De Leonardis, R Monasson
Physical Review E 90 (1), 012132, 2014
272014
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
242016
The energy costs of insulators in biochemical networks
JP Barton, ED Sontag
Biophysical Journal 104 (6), 1380-1390, 2013
222013
Rational design of vaccine targets and strategies for HIV: a crossroad of statistical physics, biology, and medicine
AK Chakraborty, JP Barton
Reports on Progress in Physics 80 (3), 032601, 2017
192017
On the entropy of protein families
JP Barton, AK Chakraborty, S Cocco, H Jacquin, R Monasson
Journal of Statistical Physics 162 (5), 1267-1293, 2016
162016
The grand canonical ABC model: a reflection asymmetric mean-field Potts model
J Barton, JL Lebowitz, ER Speer
Journal of Physics A: Mathematical and Theoretical 44 (6), 065005, 2011
142011
Deconvolving mutational patterns of poliovirus outbreaks reveals its intrinsic fitness landscape
AA Quadeer, JP Barton, AK Chakraborty, MR McKay
Nature Communications 11 (1), 1-13, 2020
132020
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Articles 1–20