Jejoong Yoo
Jejoong Yoo
Sungkyunkwan University, Department of Physics
Verified email at - Homepage
Cited by
Cited by
Improved parametrization of Li+, Na+, K+, and Mg2+ ions for all-atom molecular dynamics simulations of nucleic acid systems
J Yoo, A Aksimentiev
The Journal of Physical Chemistry Letters 3 (1), 45-50, 2012
Modeling and simulation of ion channels
C Maffeo, S Bhattacharya, J Yoo, D Wells, A Aksimentiev
Chemical reviews 112 (12), 6250-6284, 2012
Effects of cytosine modifications on DNA flexibility and nucleosome mechanical stability
TTM Ngo, J Yoo, Q Dai, Q Zhang, C He, A Aksimentiev, T Ha
Nature communications 7 (1), 10813, 2016
Large-conductance transmembrane porin made from DNA origami
K Göpfrich, CY Li, M Ricci, SP Bhamidimarri, J Yoo, B Gyenes, ...
ACS nano 10 (9), 8207-8214, 2016
In situ structure and dynamics of DNA origami determined through molecular dynamics simulations
J Yoo, A Aksimentiev
Proceedings of the National Academy of Sciences 110 (50), 20099-20104, 2013
New tricks for old dogs: improving the accuracy of biomolecular force fields by pair-specific corrections to non-bonded interactions
J Yoo, A Aksimentiev
Physical Chemistry Chemical Physics 20 (13), 8432-8449, 2018
Ion channels made from a single membrane-spanning DNA duplex
K Göpfrich, CY Li, I Mames, SP Bhamidimarri, M Ricci, J Yoo, A Mames, ...
Nano letters 16 (7), 4665-4669, 2016
Improved parameterization of amine–carboxylate and amine–phosphate interactions for molecular dynamics simulations using the CHARMM and AMBER force fields
J Yoo, A Aksimentiev
Journal of chemical theory and computation 12 (1), 430-443, 2016
Does arginine remain protonated in the lipid membrane? Insights from microscopic pKa calculations
J Yoo, Q Cui
Biophysical journal 94 (8), L61-L63, 2008
A synthetic enzyme built from DNA flips 107 lipids per second in biological membranes
A Ohmann, CY Li, C Maffeo, K Al Nahas, KN Baumann, K Göpfrich, J Yoo, ...
Nature communications 9 (1), 2426, 2018
Competitive binding of cations to duplex DNA revealed through molecular dynamics simulations
J Yoo, A Aksimentiev
The Journal of Physical Chemistry B 116 (43), 12946-12954, 2012
Ionic conductivity, structural deformation, and programmable anisotropy of DNA origami in electric field
CY Li, EA Hemmig, J Kong, J Yoo, S Hernández-Ainsa, UF Keyser, ...
ACS nano 9 (2), 1420-1433, 2015
A finite element framework for studying the mechanical response of macromolecules: application to the gating of the mechanosensitive channel MscL
Y Tang, G Cao, X Chen, J Yoo, A Yethiraj, Q Cui
Biophysical journal 91 (4), 1248-1263, 2006
De novo reconstruction of DNA origami structures through atomistic molecular dynamics simulation
C Maffeo, J Yoo, A Aksimentiev
Nucleic acids research 44 (7), 3013-3019, 2016
Curvature generation and pressure profile modulation in membrane by lysolipids: insights from coarse-grained simulations
J Yoo, Q Cui
Biophysical journal 97 (8), 2267-2276, 2009
Molecular dynamics of membrane-spanning DNA channels: conductance mechanism, electro-osmotic transport, and mechanical gating
J Yoo, A Aksimentiev
The journal of physical chemistry letters 6 (23), 4680-4687, 2015
The structure and intermolecular forces of DNA condensates
J Yoo, A Aksimentiev
Nucleic acids research 44 (5), 2036-2046, 2016
Close encounters with DNA
C Maffeo, J Yoo, J Comer, DB Wells, B Luan, A Aksimentiev
Journal of Physics: Condensed Matter 26 (41), 413101, 2014
Direct evidence for sequence-dependent attraction between double-stranded DNA controlled by methylation
J Yoo, H Kim, A Aksimentiev, T Ha
Nature communications 7 (1), 11045, 2016
Sequence-dependent DNA condensation as a driving force of DNA phase separation
H Kang, J Yoo, BK Sohn, SW Lee, HS Lee, W Ma, JM Kee, A Aksimentiev, ...
Nucleic acids research 46 (18), 9401-9413, 2018
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