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Jessica M. J. Swanson · SciRah

Researcher profile · Semantic Scholar

Jessica M. J. Swanson

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Jessica M. J. Swanson — researcher profile on SciRah

h-index: 28
Works: 59
Citations: 2,098

Most-cited papers

Proton solvation and transport in aqueous and biomolecular systems: insights from computer simulations.
Jessica M. J. Swanson, C. Maupin, Hanning Chen, Matt K. Petersen +3 more
2007Journal of Physical Chemistry B264 citations Open access
Semantic Scholar
Acid activation mechanism of the influenza A M2 proton channel
Rui-Bin Liang, Jessica M. J. Swanson, J. J. Madsen, M. Hong +2 more
2016Proceedings of the National Academy of Sciences of the United States of America98 citations Open access
Semantic Scholar
The role of charge transfer in the structure and dynamics of the hydrated proton
Jessica M. J. Swanson, J. Simons
2009Journal of Physical Chemistry B92 citations Open access
Semantic Scholar
Hydrated Excess Protons Can Create Their Own Water Wires
Yuxing Peng, Jessica M. J. Swanson, Seung-Gu Kang, R. Zhou +1 more
2014Journal of Physical Chemistry B91 citations Open access
Semantic Scholar
Computer simulation of water in cytochrome c oxidase.
Xuehe Zheng, D. M. Medvedev, Jessica M. J. Swanson, A. Stuchebrukhov
2003Biochimica et Biophysica Acta88 citations Open access
Semantic Scholar
Multiscale simulation reveals a multifaceted mechanism of proton permeation through the influenza A M2 proton channel
Rui-Bin Liang, Hui Li, Jessica M. J. Swanson, G. Voth
2014Proceedings of the National Academy of Sciences of the United States of America84 citations Open access
Semantic Scholar
The CYTOLD and ERTOLD pathways for lipid droplet–protein targeting
Maria-Jesus Olarte, Jessica M. J. Swanson, T. Walther, Robert V Farese
2021TIBS -Trends in Biochemical Sciences. Regular ed82 citations Open access
Semantic Scholar
Dynamic Protonation Dramatically Affects the Membrane Permeability of Drug-like Molecules
Z. Yue, Chenghan Li, G. Voth, Jessica M. J. Swanson
2019Journal of the American Chemical Society77 citations Open access
Semantic Scholar
Proton movement and coupling in the POT family of peptide transporters
J. L. Parker, Chenghan Li, A. Brinth, Zhi Wang +7 more
2017Proceedings of the National Academy of Sciences of the United States of America75 citations Open access
Semantic Scholar
Limitations of atom-centered dielectric functions in implicit solvent models.
Jessica M. J. Swanson, John T. Mongan, J. McCammon
2005Journal of Physical Chemistry B72 citations
Semantic Scholar
Determinants of endoplasmic reticulum-to-lipid droplet protein targeting
Maria-Jesus Olarte, Siyoung Kim, Morris E. Sharp, Jessica M. J. Swanson +2 more
2020Developmental Cell68 citations Open access
Semantic Scholar
Multiscale simulations reveal key features of the proton-pumping mechanism in cytochrome c oxidase
Rui-Bin Liang, Jessica M. J. Swanson, Yuxing Peng, M. Wikström +1 more
2016Proceedings of the National Academy of Sciences of the United States of America66 citations Open access
Semantic Scholar
Molecular transport through membranes: Accurate permeability coefficients from multidimensional potentials of mean force and local diffusion constants.
Rui Sun, Yi-Ning Han, Jessica M. J. Swanson, Jeffrey S. Tan +2 more
2018Journal of Chemical Physics57 citations Open access
Semantic Scholar
The Intricate Role of Water in Proton Transport through Cytochrome c Oxidase
Hyun Ju Lee, E. Svahn, Jessica M. J. Swanson, H. Lepp +3 more
2010Journal of the American Chemical Society55 citations Open access
Semantic Scholar
Coarse-graining in interaction space: a systematic approach for replacing long-range electrostatics with short-range potentials.
S. Izvekov, Jessica M. J. Swanson, G. Voth
2008Journal of Physical Chemistry B55 citations
Semantic Scholar
Multiscale Simulations Reveal Key Aspects of the Proton Transport Mechanism in the ClC-ec1 Antiporter.
Sang-Yun Lee, Jessica M. J. Swanson, G. Voth
2016Biophysical Journal49 citations Open access
Semantic Scholar
Optimizing the Poisson Dielectric Boundary with Explicit Solvent Forces and Energies: Lessons Learned with Atom-Centered Dielectric Functions.
Jessica M. J. Swanson, Jason A. Wagoner, Nathan A. Baker, J. McCammon
2007Journal of Chemical Theory and Computation46 citations
Semantic Scholar
Computationally Efficient Multiscale Reactive Molecular Dynamics to Describe Amino Acid Deprotonation in Proteins
Sang-Yun Lee, Rui-Bin Liang, G. Voth, Jessica M. J. Swanson
2016Journal of Chemical Theory and Computation45 citations Open access
Semantic Scholar
The entropic cost of protein-protein association: a case study on acetylcholinesterase binding to fasciculin-2.
D. Minh, Jennifer M. Bui, Chia-En A. Chang, T. Jain +2 more
2005Biophysical Journal45 citations Open access
Semantic Scholar
The Surface and Hydration Properties of Lipid Droplets.
Siyoung Kim, Jessica M. J. Swanson
2020Biophysical Journal44 citations Open access
Semantic Scholar
Multiscale Kinetic Modeling Reveals an Ensemble of Cl–/H+ Exchange Pathways in ClC-ec1 Antiporter
H. Mayes, Sang-Yun Lee, A. White, G. Voth +1 more
2018Journal of the American Chemical Society44 citations Open access
Semantic Scholar
Understanding the essential proton-pumping kinetic gates and decoupling mutations in cytochrome c oxidase
Rui-Bin Liang, Jessica M. J. Swanson, M. Wikström, G. Voth
2017Proceedings of the National Academy of Sciences of the United States of America38 citations Open access
Semantic Scholar
The Origin of Coupled Chloride and Proton Transport in a Cl–/H+ Antiporter
Sang-Yun Lee, H. Mayes, Jessica M. J. Swanson, G. Voth
2016bioRxiv36 citations Open access
Semantic Scholar
Multiscale Reactive Molecular Dynamics for Absolute pKa Predictions and Amino Acid Deprotonation
J. Nelson, Yuxing Peng, D. Silverstein, Jessica M. J. Swanson
2014Journal of Chemical Theory and Computation35 citations Open access
Semantic Scholar
Benchmark Study of the SCC-DFTB Approach for a Biomolecular Proton Channel
Rui-Bin Liang, Jessica M. J. Swanson, G. Voth
2014Journal of Chemical Theory and Computation34 citations Open access
Semantic Scholar
Computational Studies of Lipid Droplets
Siyoung Kim, Jessica M. J. Swanson, G. Voth
2022Journal of Physical Chemistry B33 citations Open access
Semantic Scholar
Proton Induced Conformational and Hydration Dynamics in the Influenza A M2 Channel
Laura C. Watkins, Rui-Bin Liang, Jessica M. J. Swanson, W. DeGrado +1 more
2019Journal of the American Chemical Society30 citations Open access
Semantic Scholar
Coupling Protein Dynamics with Proton Transport in Human Carbonic Anhydrase II
Srabani Taraphder, C. Maupin, Jessica M. J. Swanson, Gregory A. Voth
2016Journal of Physical Chemistry B30 citations Open access
Semantic Scholar
Lasso Peptides: Exploring the Folding Landscape of Nature’s Smallest Interlocked Motifs
G. C. A. da Hora, Myongin Oh, Marcus C Mifflin, Lori Digal +2 more
2024Journal of the American Chemical Society28 citations Open access
Semantic Scholar
Understanding and Tracking the Excess Proton in Ab Initio Simulations; Insights from IR Spectra
Chenghan Li, Jessica M. J. Swanson
2020Journal of Physical Chemistry B27 citations Open access
Semantic Scholar
Membrane perturbing properties of toxin mycolactone from Mycobacterium ulcerans
C. López, C. Unkefer, B. Swanson, Jessica M. J. Swanson +1 more
2018PLoS Comput. Biol.27 citations Open access
Semantic Scholar
Stressed Lipid Droplets: How Neutral Lipids Relieve Surface Tension and Membrane Expansion Drives Protein Association
Siyoung Kim, M. Oh, Jessica M. J. Swanson
2021Journal of Physical Chemistry B23 citations Open access
Semantic Scholar
Mycolactone Toxin Membrane Permeation: Atomistic versus Coarse-Grained MARTINI Simulations.
Fikret Aydin, Rui Sun, Jessica M. J. Swanson
2019Biophysical Journal21 citations Open access
Semantic Scholar
Modulating the Chemical Transport Properties of a Transmembrane Antiporter via Alternative Anion Flux
Zhi Wang, Jessica M. J. Swanson, G. Voth
2018Journal of the American Chemical Society21 citations Open access
Semantic Scholar
Capturing the Liquid-Crystalline Phase Transformation: Implications for Protein Targeting to Sterol Ester-Rich Lipid Droplets
R. Braun, Jessica M. J. Swanson
2022bioRxiv18 citations Open access
Semantic Scholar
Tld1 is a regulator of triglyceride lipolysis that demarcates a lipid droplet subpopulation
N. Speer, R. J. Braun, E. Reynolds, Alicja Brudnicka +2 more
2023Journal of Cell Biology17 citations Open access
Semantic Scholar
Using force-matching to reveal essential differences between density functionals in ab initio molecular dynamics simulations.
S. Izvekov, Jessica M. J. Swanson
2011Journal of Chemical Physics17 citations
Semantic Scholar
Industrially Applicable De Novo Lager Yeast Hybrids with a Unique Genomic Architecture: Creation and Characterization
Zachari Turgeon, T. Sierocinski, C. Brimacombe, Yiqiong Jin +4 more
2020Applied and Environmental Microbiology16 citations Open access
Semantic Scholar
Improving the accuracy and convergence of drug permeation simulations via machine-learned collective variables.
Fikret Aydin, Aleksander E. P. Durumeric, G. C. A. da Hora, John D. M. Nguyen +2 more
2021Journal of Chemical Physics13 citations
Semantic Scholar
Local Conformational Dynamics Regulating Transport Properties of a Cl−/H+ Antiporter
Zhi Wang, Jessica M. J. Swanson, G. Voth
2019Journal of Computational Chemistry8 citations Open access
Semantic Scholar
tICA-Metadynamics for Identifying Slow Dynamics in Membrane Permeation
Myongin Oh, G. C. A. da Hora, Jessica M. J. Swanson
2023Journal of Chemical Theory and Computation7 citations Open access
Semantic Scholar
Toward a Multipathway Perspective: pH-Dependent Kinetic Selection of Competing Pathways and the Role of the Internal Glutamate in Cl−/H+ Antiporters
Z. Yue, Austen Bernardi, Chenghan Li, A. V. Mironenko +1 more
2021Journal of Physical Chemistry B7 citations Open access
Semantic Scholar
Can Membrane Composition Traffic Toxins? Mycolactone and Preferential Membrane Interactions
G. C. A. da Hora, John D. M. Nguyen, Jessica M. J. Swanson
2022bioRxiv6 citations Open access
Semantic Scholar
CycFlowDec: A Python module for decomposing flow networks using simple cycles
Austen Bernardi, Jessica M. J. Swanson
2021SoftwareX5 citations Open access
Semantic Scholar
Tld1 is a novel regulator of triglyceride lipolysis that demarcates a lipid droplet subpopulation
N. Speer, R. J. Braun, E. Reynolds, Alicja Brudnicka +2 more
2023bioRxiv3 citations Open access
Semantic Scholar
Mycolactone A vs. B: Multiscale Simulations Reveal the Roles of Localization and Association in Isomer-Specific Toxicity
John D. M. Nguyen, G. C. A. da Hora, Jessica M. J. Swanson
2023Toxins2 citations Open access
Semantic Scholar
Environmental Considerations for Pipeline Abandonment: A Case Study From Abandonment of a Southern Alberta Pipeline
Jessica M. J. Swanson, Tom Kunicky, P. Poohkay
20102 citations
Semantic Scholar
Chapter 10:Computational Means of Assessing Proton Pumping in Cytochrome c Oxidase (Complex IV)
Jessica M. J. Swanson
20171 citations
Semantic Scholar
tICA-Metadynamics for Identifying Slow Dynamics in Membrane Permeation
Myongin Oh, G. C. A. da Hora, Jessica M. J. Swanson
2023bioRxiv0 citations Open access
Semantic Scholar
Mycolactone A vs. B: Does localization or association explain isomer-specific toxicity?
John D. M. Nguyen, G. C. A. da Hora, Jessica M. J. Swanson
2023bioRxiv0 citations Open access
Semantic Scholar

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