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Allison J. Lopatkin
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Year
Bacterial Metabolism and Antibiotic Efficacy
JM Stokes, AJ Lopatkin, MA Lobritz, JJ Collins
Cell Metabolism, 2019
3802019
Persistence and reversal of plasmid-mediated antibiotic resistance
AJ Lopatkin, HR Meredith, JK Srimani, C Pfeiffer, R Durrett, L You
Nature communications 8 (1), 1689, 2017
2872017
A white-box machine learning approach for revealing antibiotic mechanisms of action
JH Yang, SN Wright, M Hamblin, D McCloskey, MA Alcantar, ...
Cell 177 (6), 1649-1661. e9, 2019
2542019
Antibiotics as a selective driver for conjugation dynamics
AJ Lopatkin, S Huang, RP Smith, JK Srimani, TA Sysoeva, S Bewick, ...
Nature microbiology 1 (6), 1-8, 2016
2492016
Clinically relevant mutations in core metabolic genes confer antibiotic resistance
AJ Lopatkin, SC Bening, AL Manson, JM Stokes, MA Kohanski, ...
Science 371 (6531), eaba0862, 2021
2182021
Bacterial metabolic state more accurately predicts antibiotic lethality than growth rate
AJ Lopatkin, JM Stokes, EJ Zheng, JH Yang, MK Takahashi, L You, ...
Nature microbiology 4 (12), 2109-2117, 2019
1842019
Collective antibiotic tolerance: mechanisms, dynamics and intervention
HR Meredith, JK Srimani, AJ Lee, AJ Lopatkin, L You
Nature chemical biology 11 (3), 182-188, 2015
1572015
Predictive biology: modelling, understanding and harnessing microbial complexity
AJ Lopatkin, JJ Collins
Nature Reviews Microbiology 18 (9), 507-520, 2020
1042020
Dissecting the effects of antibiotics on horizontal gene transfer: Analysis suggests a critical role of selection dynamics
AJ Lopatkin, TA Sysoeva, L You
Bioessays 38 (12), 1283-1292, 2016
732016
Environmental and genetic determinants of plasmid mobility in pathogenic Escherichia coli
JH Bethke, A Davidovich, L Cheng, AJ Lopatkin, W Song, JT Thaden, ...
Science advances 6 (4), eaax3173, 2020
582020
Applying ecological resistance and resilience to dissect bacterial antibiotic responses
HR Meredith, V Andreani, HR Ma, AJ Lopatkin, AJ Lee, DJ Anderson, ...
Science advances 4 (12), eaau1873, 2018
472018
Elements of biological oscillations in time and space
Y Cao, A Lopatkin, L You
Nature Structural & Molecular Biology 23 (12), 1030-1034, 2016
462016
Conjugation dynamics depend on both the plasmid acquisition cost and the fitness cost
H Prensky, A Gomez‐Simmonds, AC Uhlemann, AJ Lopatkin
Molecular systems biology 17 (3), e9913, 2021
422021
Bacterial temporal dynamics enable optimal design of antibiotic treatment
HR Meredith, AJ Lopatkin, DJ Anderson, L You
PLoS computational biology 11 (4), e1004201, 2015
422015
A multiplexable assay for screening antibiotic lethality against drug-tolerant bacteria
JM Stokes, A Gutierrez, AJ Lopatkin, IW Andrews, S French, I Matic, ...
Nature Methods 16 (4), 303-306, 2019
352019
Drug detoxification dynamics explain the postantibiotic effect
JK Srimani, S Huang, AJ Lopatkin, L You
Molecular Systems Biology 13 (10), 948, 2017
352017
Dynamic control and quantification of bacterial population dynamics in droplets
S Huang, JK Srimani, AJ Lee, Y Zhang, AJ Lopatkin, KW Leong, L You
Biomaterials 61, 239-245, 2015
302015
A unifying framework for interpreting and predicting mutualistic systems
F Wu, AJ Lopatkin, DA Needs, CT Lee, S Mukherjee, L You
Nature communications 10 (1), 242, 2019
232019
Digital insights into nucleotide metabolism and antibiotic treatment failure
AJ Lopatkin, JH Yang
Frontiers in digital health 3, 583468, 2021
212021
Cooperation and competition shape ecological resistance during periodic spatial disturbance of engineered bacteria
CE Wilson, AJ Lopatkin, TJA Craddock, WW Driscoll, OT Eldakar, ...
Scientific reports 7 (1), 440, 2017
212017
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