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Juan M. Vanegas, Ph.D. - Publications

Affiliations: 
2011 Biophysics University of California, Davis, Davis, CA 
Area:
General Biophysics
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23 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 Pirhadi E, Vanegas JM, Farin M, Schertzer JW, Yong X. Effect of Local Stress on Accurate Modeling of Bacterial Outer Membranes Using All-Atom Molecular Dynamics. Journal of Chemical Theory and Computation. PMID 36579901 DOI: 10.1021/acs.jctc.2c01026  0.415
2020 Rajitha Rajeshwar T, Anishkin A, Sukharev S, Vanegas JM. Mechanical Activation of MscL Revealed by a Locally Distributed Tension Molecular Dynamics Approach. Biophysical Journal. PMID 33333032 DOI: 10.1016/j.bpj.2020.11.2274  0.304
2020 Winkeljohn CM, Himberg B, Vanegas JM. Balance of Solvent and Chain Interactions Determines the Local Stress State of Simulated Membranes. The Journal of Physical Chemistry. B. 124: 6963-6971. PMID 32667795 DOI: 10.1021/Acs.Jpcb.0C03937  0.46
2020 Chaudhari MI, Vanegas JM, Pratt LR, Muralidharan A, Rempe SB. Hydration Mimicry by Membrane Ion Channels. Annual Review of Physical Chemistry. PMID 32155383 DOI: 10.1146/Annurev-Physchem-012320-015457  0.315
2019 Torres-Sánchez A, Vanegas JM, Purohit PK, Arroyo M. Combined molecular/continuum modeling reveals the role of friction during fast unfolding of coiled-coil proteins. Soft Matter. PMID 31172154 DOI: 10.1039/C9Sm00117D  0.322
2019 Vanegas JM, Tatikonda RR. Mechanics, Structure, and Energetics of MscL through Local Stress Calculations and Steered MD Simulations Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.2054  0.32
2018 Wen PC, Vanegas JM, Rempe SB, Tajkhorshid E. Probing key elements of teixobactin-lipid II interactions in membranes. Chemical Science. 9: 6997-7008. PMID 30210775 DOI: 10.1039/C8Sc02616E  0.432
2018 Fu Y, Jiang YB, Dunphy D, Xiong H, Coker E, Chou S, Zhang H, Vanegas JM, Croissant JG, Cecchi JL, Rempe SB, Brinker CJ. Ultra-thin enzymatic liquid membrane for COseparation and capture. Nature Communications. 9: 990. PMID 29515116 DOI: 10.1038/S41467-018-03285-X  0.355
2018 Vanegas JM, Heinrich F, Rogers DM, Carson BD, La Bauve S, Vernon BC, Akgun B, Satija S, Zheng A, Kielian M, Rempe SB, Kent MS. Insertion of dengue E into lipid bilayers studied by neutron reflectivity and molecular dynamics simulations. Biochimica Et Biophysica Acta. PMID 29447917 DOI: 10.1016/J.Bbamem.2018.02.012  0.476
2018 Wen P, Vanegas JM, Rempe SB, Tajkhorshid E. Exploring Conformations of the Teixobactin-Lipid II Complex in Membrane Biophysical Journal. 114: 456a. DOI: 10.1016/J.Bpj.2017.11.2519  0.421
2017 Vanegas JM, Torres-Sanchez A, Arroyo M. Beyond Lateral Pressure Profiles: Local Stress and the Traction Vector in MD Simulations Biophysical Journal. 112. DOI: 10.1016/J.Bpj.2016.11.765  0.446
2017 Vanegas JM, Heinrich F, Rogers DM, Carson BD, Bauve SL, Vernon BC, Akgun B, Satija S, Zheng A, Kielian M, Rempe SB, Kent MS. Study of Insertion of Dengue E into Lipid Bilayers by Neutron Reflectivity and Molecular Dynamics Simulations Biophysical Journal. 112. DOI: 10.1016/J.Bpj.2016.11.221  0.465
2016 Torres-Sánchez A, Vanegas JM, Arroyo M. Geometric derivation of the microscopic stress: A covariant central force decomposition Journal of the Mechanics and Physics of Solids. 93: 224-239. DOI: 10.1016/J.Jmps.2016.03.006  0.322
2015 Torres-Sánchez A, Vanegas JM, Arroyo M. Examining the Mechanical Equilibrium of Microscopic Stresses in Molecular Simulations. Physical Review Letters. 114: 258102. PMID 26197144 DOI: 10.1103/Physrevlett.114.258102  0.375
2015 Vanegas JM, Rogers DM, Kent MS, Rempe SB. Role of Electrostatic Interactions in the Anchoring of Dengue E Protein to Lipid Membranes Biophysical Journal. 108: 406a. DOI: 10.1016/J.Bpj.2014.11.2226  0.442
2014 Vanegas JM, Torres-Sánchez A, Arroyo M. Importance of Force Decomposition for Local Stress Calculations in Biomembrane Molecular Simulations. Journal of Chemical Theory and Computation. 10: 691-702. PMID 26580046 DOI: 10.1021/Ct4008926  0.361
2014 Vanegas JM, Arroyo M. Force transduction and lipid binding in MscL: a continuum-molecular approach. Plos One. 9: e113947. PMID 25437007 DOI: 10.1371/Journal.Pone.0113947  0.465
2014 Vanegas JM, Faller R, Longo ML. Keeping Order While Moving Fast: Ergosterol Pairs Lead to Dynamic Networks in Lipid Membranes Biophysical Journal. 106: 509a. DOI: 10.1016/J.Bpj.2013.11.2848  0.553
2012 Vanegas JM, Contreras MF, Faller R, Longo ML. Role of unsaturated lipid and ergosterol in ethanol tolerance of model yeast biomembranes. Biophysical Journal. 102: 507-16. PMID 22325273 DOI: 10.1016/J.Bpj.2011.12.038  0.595
2011 Vanegas JM, Longo ML, Faller R. Crystalline, ordered and disordered lipid membranes: convergence of stress profiles due to ergosterol. Journal of the American Chemical Society. 133: 3720-3. PMID 21366242 DOI: 10.1021/Ja110327R  0.594
2010 Vanegas JM, Faller R, Longo ML. Influence of ethanol on lipid/sterol membranes: phase diagram construction from AFM imaging. Langmuir : the Acs Journal of Surfaces and Colloids. 26: 10415-8. PMID 20518564 DOI: 10.1021/La1012268  0.579
2010 Vanegas JM, Block DE, Longo ML, Faller R. Structure and Phase Behavior of Cholesterol Containing Membranes in the Presence of Ethanol Biophysical Journal. 98: 491a. DOI: 10.1016/J.Bpj.2009.12.2676  0.614
2009 Goksu EI, Vanegas JM, Blanchette CD, Lin WC, Longo ML. AFM for structure and dynamics of biomembranes. Biochimica Et Biophysica Acta. 1788: 254-66. PMID 18822269 DOI: 10.1016/J.Bbamem.2008.08.021  0.454
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