☰

cached image

Margaret E. Johnson, Ph.D. - Publications

Affiliations: 
Biophysics Johns Hopkins University, Baltimore, MD 
Area:
Theoretical Biophysics
Website:
http://web1.johnshopkins.edu/johnsonlab/
Tree Info Similar researchers PubMed Report error

32 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Guo SK, Sodt AJ, Johnson ME. Large self-assembled clathrin lattices spontaneously disassemble without sufficient adaptor proteins. Plos Computational Biology. 18: e1009969. PMID 35312692 DOI: 10.1371/journal.pcbi.1009969  0.594
2020 Varga MJ, Fu Y, Loggia S, Yogurtcu ON, Johnson ME. NERDSS: A Nonequilibrium Simulator for Multibody Self-Assembly at the Cellular Scale. Biophysical Journal. PMID 32470324 DOI: 10.1016/J.Bpj.2020.05.002  0.358
2020 Fu Y, Sodt AJ, Johnson ME. An Implicit Lipid Model for Efficient Reaction Diffusion Simulations of Proteins Binding to Arbitrary Surfaces Biophysical Journal. 118: 240a. DOI: 10.1016/J.Bpj.2019.11.1412  0.643
2019 Fu Y, Yogurtcu ON, Kothari R, Thorkelsdottir G, Sodt AJ, Johnson ME. An implicit lipid model for efficient reaction-diffusion simulations of protein binding to surfaces of arbitrary topology. The Journal of Chemical Physics. 151: 124115. PMID 31575182 DOI: 10.1063/1.5120516  0.652
2018 Johnson ME. Modeling the Self-Assembly of Protein Complexes through a Rigid-Body Rotational Reaction-Diffusion Algorithm. The Journal of Physical Chemistry. B. PMID 30256109 DOI: 10.1021/Acs.Jpcb.8B08339  0.35
2018 Holland DO, Johnson ME. Stoichiometric balance of protein copy numbers is measurable and functionally significant in a protein-protein interaction network for yeast endocytosis. Plos Computational Biology. 14: e1006022. PMID 29518071 DOI: 10.1371/Journal.Pcbi.1006022  0.384
2018 Yogurtcu ON, Johnson ME. Cytosolic proteins can exploit membrane localization to trigger functional assembly. Plos Computational Biology. 14: e1006031. PMID 29505559 DOI: 10.1371/Journal.Pcbi.1006031  0.373
2017 Holland DO, Shapiro BH, Xue P, Johnson ME. Protein-protein binding selectivity and network topology constrain global and local properties of interface binding networks. Scientific Reports. 7: 5631. PMID 28717235 DOI: 10.1038/S41598-017-05686-2  0.367
2017 Yogurtcu O, Johnson ME. Membrane Recruitment Enables Weak Binding Endocytic Proteins to Form Stable Complexes Biophysical Journal. 112: 91a. DOI: 10.1016/J.Bpj.2016.11.535  0.393
2017 Yogurtcu ON, Johnson ME. Membrane Recruitment can Increase the Number of Protein Assemblies by Many Folds: Insights from Theory and Reaction-Diffusion Simulation Biophysical Journal. 112: 46a. DOI: 10.1016/J.Bpj.2016.11.290  0.406
2016 Holland DO, Johnson ME. Optimizing Protein Specificity in the Crowded Cell through Concentration Balance and Network motif Selection Biophysical Journal. 110: 479a. DOI: 10.1016/J.Bpj.2015.11.2563  0.368
2016 Yogurtcu ON, Johnson ME. Governing Principles of Multiprotein Complex Formation on the Cell Membranes: An Investigation using Single-Molecule Resolution Spatio-Temporal Stochastic Computer Simulations and Analytical Calculations Biophysical Journal. 110: 347a. DOI: 10.1016/J.Bpj.2015.11.1866  0.396
2015 Yogurtcu ON, Johnson ME. Theory of bi-molecular association dynamics in 2D for accurate model and experimental parameterization of binding rates. The Journal of Chemical Physics. 143: 084117. PMID 26328828 DOI: 10.1063/1.4929390  0.307
2015 Calligari PA, Calandrini V, Ollivier J, Artero JB, Härtlein M, Johnson M, Kneller GR. Adaptation of Extremophilic Proteins with Temperature and Pressure: Evidence from Initiation Factor 6. The Journal of Physical Chemistry. B. 119: 7860-73. PMID 25996652 DOI: 10.1021/Acs.Jpcb.5B02034  0.303
2015 Yogurtcu ON, Johnson ME. Novel Single-Molecule Resolution Method for Spatio-Temporal Simulations of Protein Binding and Recruitment on the Membrane Biophysical Journal. 108: 526a. DOI: 10.1016/J.Bpj.2014.11.2883  0.433
2015 Holland DO, Johnson ME. Optimizing Protein Expression Levels as a Function of Network Topology Minimizes Nonfunctional Complex Formation Biophysical Journal. 108: 314a. DOI: 10.1016/J.Bpj.2014.11.1706  0.372
2014 Johnson ME, Hummer G. Free-Propagator Reweighting Integrator for Single-Particle Dynamics in Reaction-Diffusion Models of Heterogeneous Protein-Protein Interaction Systems. Physical Review. X. 4. PMID 26005592 DOI: 10.1103/Physrevx.4.031037  0.541
2014 Johnson ME, Hummer G. Heterogeneous Protein-Protein Interaction Systems Modeled using a New Integrator for Single-Particle Reaction Diffusion Biophysical Journal. 106: 378a. DOI: 10.1016/J.Bpj.2013.11.2139  0.569
2013 Johnson ME, Hummer G. Evolutionary pressure on the topology of protein interface interaction networks. The Journal of Physical Chemistry. B. 117: 13098-106. PMID 23701316 DOI: 10.1021/Jp402944E  0.54
2013 Johnson ME, Hummer G. Interface-resolved network of protein-protein interactions. Plos Computational Biology. 9: e1003065. PMID 23696724 DOI: 10.1371/Journal.Pcbi.1003065  0.556
2013 Johnson ME, Hummer G. The Topology of Interface Interaction Networks Reflects on Protein-Protein Interaction Specificity and Regulation Biophysical Journal. 104: 160a. DOI: 10.1016/J.Bpj.2012.11.903  0.551
2012 Johnson ME, Hummer G. Characterization of a dynamic string method for the construction of transition pathways in molecular reactions. The Journal of Physical Chemistry. B. 116: 8573-83. PMID 22616575 DOI: 10.1021/Jp212611K  0.518
2012 Johnson ME, Hummer G. Refining Protein Interaction Networks with Protein Structure and Kinetic Modeling Biophysical Journal. 102: 226a. DOI: 10.1016/J.Bpj.2011.11.1240  0.559
2011 Johnson ME, Hummer G. Nonspecific binding limits the number of proteins in a cell and shapes their interaction networks. Proceedings of the National Academy of Sciences of the United States of America. 108: 603-8. PMID 21187424 DOI: 10.1016/J.Bpj.2010.12.378  0.555
2010 Ponder JW, Wu C, Ren P, Pande VS, Chodera JD, Schnieders MJ, Haque I, Mobley DL, Lambrecht DS, DiStasio RA, Head-Gordon M, Clark GN, Johnson ME, Head-Gordon T. Current status of the AMOEBA polarizable force field. The Journal of Physical Chemistry. B. 114: 2549-64. PMID 20136072 DOI: 10.1021/Jp910674D  0.709
2010 Johnson ME, Malardier-Jugroot C, Head-Gordon T. Effects of co-solvents on peptide hydration water structure and dynamics. Physical Chemistry Chemical Physics : Pccp. 12: 393-405. PMID 20023817 DOI: 10.1039/B915888J  0.758
2010 Malardier-Jugroot C, Bowron DT, Soper AK, Johnson ME, Head-Gordon T. Structure and water dynamics of aqueous peptide solutions in the presence of co-solvents. Physical Chemistry Chemical Physics : Pccp. 12: 382-92. PMID 20023816 DOI: 10.1039/B915346B  0.757
2009 Johnson ME, Head-Gordon T. Assessing thermodynamic-dynamic relationships for waterlike liquids. The Journal of Chemical Physics. 130: 214510. PMID 19508079 DOI: 10.1063/1.3140608  0.581
2009 Johnson ME, Malardier-Jugroot C, Murarka RK, Head-Gordon T. Hydration water dynamics near biological interfaces. The Journal of Physical Chemistry. B. 113: 4082-92. PMID 19425247 DOI: 10.1021/Jp806183V  0.741
2008 Malardier-Jugroot C, Johnson ME, Murarka RK, Head-Gordon T. Aqueous peptides as experimental models for hydration water dynamics near protein surfaces. Physical Chemistry Chemical Physics : Pccp. 10: 4903-8. PMID 18688534 DOI: 10.1039/B806995F  0.737
2007 Johnson ME, Head-Gordon T, Louis AA. Representability problems for coarse-grained water potentials. The Journal of Chemical Physics. 126: 144509. PMID 17444725 DOI: 10.1063/1.2715953  0.571
2006 Head-Gordon T, Johnson ME. Tetrahedral structure or chains for liquid water. Proceedings of the National Academy of Sciences of the United States of America. 103: 7973-7. PMID 16698934 DOI: 10.1073/Pnas.0510593103  0.545
Show low-probability matches.