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Hyeon, Changbong
/ School of Computational Sciences
Theoretical and Computational Biophysics
Changbong Hyeon works mostly on theoretical and computational studies of biological systems. The emergence of life from individual physicochemical processes of cellular constituents is a major outstanding question in biophysics. The research interests of this group lie in the dynamics of DNA, RNA, and proteins at the single molecule level, as well as in the interactions among these molecules in giant macromolecular complexes such as chromosomes. Studies towards understanding biological phenomena at the systems level are a long-term research goal. Major contributions have recently been made in areas such as: (i) the physical principles underlying molecular motors, (ii) the origin of heterogeneity in bimolecular processes, and (iii) nonequilibrium thermodynamics in living systems.
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Title : Water-mediated biomolecular dynamics and allostery Journal : J. Chem. Phys. (2020) 152, 240901
Publication(career) NUMBER AUTHOR D. M. Leitner, C. Hyeon, K. M. Reid TITLE Water-mediated biomolecular dynamics and allostery ARCHIVE FILE JOURNAL J. Chem. Phys. (2020) 152, 240901 ABSTRACT
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Title : Thermodynamic cost, speed, fluctuations, and error reduction of biological copy machines Journal : J. Phys. Chem. Lett. (2020) 11, 3136-3143
Publication(career) NUMBER AUTHOR Y. Song, C. Hyeon TITLE Thermodynamic cost, speed, fluctuations, and error reduction of biological copy machines ARCHIVE FILE JOURNAL J. Phys. Chem. Lett. (2020) 11, 3136-3143 ABSTRACT
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Title : Near-¥È polymers in a cylindrical space Journal : Macromolecules (2020) 53, 2412-2419
Publication(career) NUMBER AUTHOR Y. Jung, C. Hyeon, B.-Y. Ha TITLE Near-¥È polymers in a cylindrical space ARCHIVE FILE JOURNAL Macromolecules (2020) 53, 2412-2419 ABSTRACT
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Title : Theoretical Perspectives on Biological Machines Journal : Rev. Mod. Phys. (2020) 92, 025001
Publication(career) NUMBER AUTHOR M. L. Mugnai, C. Hyeon, M. Hinczewski, D. Thirumalai TITLE Theoretical Perspectives on Biological Machines ARCHIVE FILE JOURNAL Rev. Mod. Phys. (2020) 92, 025001 ABSTRACT
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Title : Increased Confinement and Polydispersity of STIM1 and Orai1 after Ca2+ Store Depletion Journal : Biophys. J. (2020) 118, 70-84
Publication(career) NUMBER AUTHOR X. Qin , L. Liu, S. K. Lee, A. Alsina, T. Liu, C. Wu, H. Park, C. Yu, H. Kim, J. Chu, A. Triller, B. Z. Tang, C. Hyeon, C. Y. Park, H. Park TITLE Increased Confinement and Polydispersity of STIM1 and Orai1 after Ca2+ Store Depletion ARCHIVE FILE JOURNAL Biophys. J. (2020) 118, 70-84 ABSTRACT
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Title : Compressing ¥È-chain in slit geometry Journal : Nano Letters (2019) 19, 5667-5673
Publication(career) NUMBER AUTHOR L. Liu, P. A. Pincus, C. Hyeon TITLE Compressing ¥È-chain in slit geometry ARCHIVE FILE JOURNAL Nano Letters (2019) 19, 5667-5673 ABSTRACT
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Title : Heterogeneous loop model to infer 3D chromosome structures from Hi-C Journal : Biophys. J. (2019) 117, 613-625
Publication(career) NUMBER AUTHOR L. Liu, M. H. Kim, C. Hyeon TITLE Heterogeneous loop model to infer 3D chromosome structures from Hi-C ARCHIVE FILE JOURNAL Biophys. J. (2019) 117, 613-625 ABSTRACT
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Title : Symmetry, Rigidity, and Allosteric Signaling: From Monomeric Proteins to Molecular Machines Journal : Chemical Reviews (2019) 119, 6788-6821
Publication(career) NUMBER AUTHOR D. Thirumalai, C. Hyeon, P. I. Zhuravlev, G. H. Lorimer TITLE Symmetry, Rigidity, and Allosteric Signaling: From Monomeric Proteins to Molecular Machines ARCHIVE FILE JOURNAL Chemical Reviews (2019) 119, 6788-6821 ABSTRACT
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Title : Chain organization of human interphase chromosome determines the spatiotemporal dynamics of chromatin loci Journal : PLOS Comp. Biol. (2018) 14, e1006175, 2018
Publication(career) NUMBER AUTHOR L. Liu, G. Shi, D. Thirumalai, C. Hyeon TITLE Chain organization of human interphase chromosome determines the spatiotemporal dynamics of chromatin loci ARCHIVE FILE JOURNAL PLOS Comp. Biol. (2018) 14, e1006175, 2018 ABSTRACT
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Title : Dynamic Coordination of Two-Metal-Ions Orchestrates ¥ë-Exonuclease catalysis Journal : Nature Communications (2018) 9:4404
Publication(career) NUMBER AUTHOR W. Hwang, Y. Yoo, Y. Lee, S. Park, P. L. Hoang, H. Cho, J. Yu, T. M. H. Vo, M. Shin, M. S. Jin, D. Park, C. Hyeon, G. Lee TITLE Dynamic Coordination of Two-Metal-Ions Orchestrates ¥ë-Exonuclease catalysis ARCHIVE FILE JOURNAL Nature Communications (2018) 9:4404 ABSTRACT
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Title : Thermodynamic uncertainty relation of interacting oscillator in synchrony Journal : Phys. Rev. E. (2018) 98, 032119
Publication(career) NUMBER AUTHOR S. Lee, C. Hyeon, J. Jo TITLE Thermodynamic uncertainty relation of interacting oscillator in synchrony ARCHIVE FILE JOURNAL Phys. Rev. E. (2018) 98, 032119 ABSTRACT
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Title : Interphase human chromosome exhibits out of equilibrium glassy dynamics Journal : Nature Communications (2018) 9:3161
Publication(career) NUMBER AUTHOR G. Shi, L. Liu, C. Hyeon, D. Thirumalai TITLE Interphase human chromosome exhibits out of equilibrium glassy dynamics ARCHIVE FILE JOURNAL Nature Communications (2018) 9:3161 ABSTRACT
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Title : Oligomer Formation Propensities of Dimeric Bundle Peptides Correlate with Cell Penetration Abilities Journal : ACS Central Science (2018) 4, 885-893
Publication(career) NUMBER AUTHOR S. Hyun, Y. Lee, S. M. Jin, J. Cho, J. Park, C. Hyeon, K.-S. Kim, Y. Lee, J. Yu TITLE Oligomer Formation Propensities of Dimeric Bundle Peptides Correlate with Cell Penetration Abilities ARCHIVE FILE JOURNAL ACS Central Science (2018) 4, 885-893 ABSTRACT
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Title : Implications for human odor sensing revealed from the statistics of odorant-receptor interactions Journal : PLoS Comp. Biol. (2018) 14, e1006175
Publication(career) NUMBER AUTHOR J. H. Bak, S. J. Jang, C. Hyeon TITLE Implications for human odor sensing revealed from the statistics of odorant-receptor interactions ARCHIVE FILE JOURNAL PLoS Comp. Biol. (2018) 14, e1006175 ABSTRACT
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Title : From Octopus to Dendrite - Semiflexible Polyelectrolyte Brush Condensates in Trivalent Counterion Solution Journal : J. Chem. Phys. (2018) 149, 163302
Publication(career) NUMBER AUTHOR L. Liu, C. Hyeon TITLE From Octopus to Dendrite - Semiflexible Polyelectrolyte Brush Condensates in Trivalent Counterion Solution ARCHIVE FILE JOURNAL J. Chem. Phys. (2018) 149, 163302 ABSTRACT
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Title : Time-evolving genetic networks reveal a NAC troika that negatively regulates leaf senescence in Arabidopsis Journal : Proc. Natl. Acad. Sci. USA (2018) 115, E4930-E4939
Publication(career) NUMBER AUTHOR H. J. Kim, J.-H. Park, J. Kim, J. J. Kim, S. Hong, J. Kim, J. H. Kim, H. R. Woo, C. Hyeon, P. O. Lim, H. G. Nam, D. Hwang TITLE Time-evolving genetic networks reveal a NAC troika that negatively regulates leaf senescence in Arabidopsis ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2018) 115, E4930-E4939 ABSTRACT
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Title : Signalling networks and dynamics of allosteric transitions in bacterial chaperonin GroEL: implications for iterative annealing of misfolded proteins Journal : PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES. v.373, no.1749, article no.20170182. 2018
Publication(career) NUMBER AUTHOR Thirumalai, D.; Hyeon, Changbong TITLE Signalling networks and dynamics of allosteric transitions in bacterial chaperonin GroEL: implications for iterative annealing of misfolded proteins ARCHIVE FILE JOURNAL PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES. v.373, no.1749, article no.20170182. 2018 ABSTRACT Signal transmission at the molecular level in many biological complexes occurs through allosteric transitions. Allostery describes the responses of a complex to binding of ligands at sites that are spatially well separated from the binding region. We describe the structural perturbation method, based on phonon propagation in solids, which can be used to determine the signal-transmitting allostery wiring diagram (AWD) in large but finite-sized biological complexes. Application to the bacterial chaperonin GroEL-GroES complex shows that the AWD determined from structures also drives the allosteric transitions dynamically. From both a structural and dynamical perspective these transitions are largely determined by formation and rupture of salt-bridges. The molecular description of allostery in GroEL provides insights into its function, which is quantitatively described by the iterative annealing mechanism. Remarkably, in this complex molecular machine, a deep connection is established between the structures, reaction cycle during which GroEL undergoes a sequence of allosteric transitions, and function, in a self-consistent manner. This article is part of a discussion meeting issue Allostery and molecular machines.
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Title : Energetic Costs, Precision, and Transport Efficiency of Molecular Motors Journal : J. Phys. Chem. Lett. (2018) 9, 513-520
Publication(career) NUMBER AUTHOR W. Hwang, C. Hyeon TITLE Energetic Costs, Precision, and Transport Efficiency of Molecular Motors ARCHIVE FILE JOURNAL J. Phys. Chem. Lett. (2018) 9, 513-520 ABSTRACT
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Title : Molecular chaperones maximize the native state yield on biological times by driving substrates out of equilibrium Journal : Proc. Natl. Acad. Sci. U. S. A. (2017) 114, E10919-E10927
Publication(career) NUMBER AUTHOR S. Chakrabarti, C. Hyeon, X. Ye, G. H. Lorimer, D. Thirumalai TITLE Molecular chaperones maximize the native state yield on biological times by driving substrates out of equilibrium ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. U. S. A. (2017) 114, E10919-E10927 ABSTRACT
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Title : Ultrasensitivity of water exchange kinetics to the size of metal ion Journal : J. Am. Chem. Soc. (Communication) (2017) 139, 12334-12337
Publication(career) NUMBER AUTHOR Y. Lee, D. Thirumalai, C. Hyeon TITLE Ultrasensitivity of water exchange kinetics to the size of metal ion ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (Communication) (2017) 139, 12334-12337 ABSTRACT
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Title : Physical insight into the thermodynamic uncertainty relation using Brownian motion in tilted periodic potentials Journal : Phys. Rev. E. (2017) 96, 012156
Publication(career) NUMBER AUTHOR C. Hyeon, W. Hwang TITLE Physical insight into the thermodynamic uncertainty relation using Brownian motion in tilted periodic potentials ARCHIVE FILE JOURNAL Phys. Rev. E. (2017) 96, 012156 ABSTRACT
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Title : Heterogeneity in kinesin function Journal : Traffic (2017) 18, 658-671
Publication(career) NUMBER AUTHOR B. J. N Reddy, S. Tripathy, M. Vershinin, M. Tanenbaum, J. Xu, M. Mattson-Hoss, K. Arabi, D. Chapman, T. Doolin, C. Hyeon, S. P. Gross TITLE Heterogeneity in kinesin function ARCHIVE FILE JOURNAL Traffic (2017) 18, 658-671 ABSTRACT
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Title : Ripping RNA by Force using Gaussian Network Models Journal : J. Phys. Chem. B (2017) vol. 121, 3515-3522
Publication(career) NUMBER AUTHOR C. Hyeon, D. Thirumalai TITLE Ripping RNA by Force using Gaussian Network Models ARCHIVE FILE JOURNAL J. Phys. Chem. B (2017) vol. 121, 3515-3522 ABSTRACT
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Title : A Kinetic Model for the Activation of Mammalian Olfactory Receptor Journal : J. Phys. Chem. B (2017) 121, 1304-1311
Publication(career) NUMBER AUTHOR S. Jang, C. Hyeon TITLE A Kinetic Model for the Activation of Mammalian Olfactory Receptor ARCHIVE FILE JOURNAL J. Phys. Chem. B (2017) 121, 1304-1311 ABSTRACT
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Title : Heterogeneous morphology and dynamics of polyelectrolyte brush condensates in trivalent counterion solution Journal : Macromolecules (2017) 50, 1579-1588
Publication(career) NUMBER AUTHOR L. Liu, P. A. Pincus, C. Hyeon TITLE Heterogeneous morphology and dynamics of polyelectrolyte brush condensates in trivalent counterion solution ARCHIVE FILE JOURNAL Macromolecules (2017) 50, 1579-1588 ABSTRACT
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Title : Quantifying the Heat Disspation from a Molecular Motors Transport Properties in Nonequilibrium Steady State Journal : J. Phys. Chem. Lett. (2017) 121, 1304-1311
Publication(career) NUMBER AUTHOR S. Jang, C. Hyeon TITLE Quantifying the Heat Disspation from a Molecular Motors Transport Properties in Nonequilibrium Steady State ARCHIVE FILE JOURNAL J. Phys. Chem. Lett. (2017) 121, 1304-1311 ABSTRACT
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Title : Decoding Single Molecule Time Traces with Dynamic Disorde Journal : PLoS Comp. Biol. (2016) 12(12), e1005286
Publication(career) NUMBER AUTHOR W. Hwang, I. -B. Lee, S. -C. Hong, C. Hyeon TITLE Decoding Single Molecule Time Traces with Dynamic Disorde ARCHIVE FILE JOURNAL PLoS Comp. Biol. (2016) 12(12), e1005286 ABSTRACT
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Title : Effects of dimethyl sulfoxide on surface water near phospholipid bilayers Journal : Biophys. J. (2016) vol. 111, 2481-2491
Publication(career) NUMBER AUTHOR Y. Lee, P. A. Pincus, C. Hyeon TITLE Effects of dimethyl sulfoxide on surface water near phospholipid bilayers ARCHIVE FILE JOURNAL Biophys. J. (2016) vol. 111, 2481-2491 ABSTRACT
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Title : How are molecular crowding and the spatial organization of a biopolymer interrelated Journal : Soft Matter (2016) vol. 12, 9786-9796
Publication(career) NUMBER AUTHOR C. Jeon, C. Hyeon, Y. Jung, B.-Y. Ha TITLE How are molecular crowding and the spatial organization of a biopolymer interrelated ARCHIVE FILE JOURNAL Soft Matter (2016) vol. 12, 9786-9796 ABSTRACT
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Title : Ultraslow water-mediated transmembrane interactions regulate the activation of A2A adenosine receptor Journal : Biophysical Journal (2016) vol. 111, 1180-1191
Publication(career) NUMBER AUTHOR Y. Lee, S. Kim, S. Choi, C. Hyeon TITLE Ultraslow water-mediated transmembrane interactions regulate the activation of A2A adenosine receptor ARCHIVE FILE JOURNAL Biophysical Journal (2016) vol. 111, 1180-1191 ABSTRACT
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Title : Directly measuring single molecule heterogeneity using force spectroscopy Journal : Proc. Natl. Acad. Sci. USA (2016) vol. 113, E3852-E3861
Publication(career) NUMBER AUTHOR Michael Hinczewski, Changbong Hyeon, D. Thirumalai TITLE Directly measuring single molecule heterogeneity using force spectroscopy ARCHIVE 1605.07294 FILE JOURNAL Proc. Natl. Acad. Sci. USA (2016) vol. 113, E3852-E3861 ABSTRACT
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Title : Contact statistics highlight distinct organizing principles of RNA and proteins Journal : Biophys. J. (2016) vol. 110, 2320-2327
Publication(career) NUMBER AUTHOR Lei Liu, Changbong Hyeon TITLE Contact statistics highlight distinct organizing principles of RNA and proteins ARCHIVE 1604.00472 FILE JOURNAL Biophys. J. (2016) vol. 110, 2320-2327 ABSTRACT
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Title : Confinement-induced glassy dynamics in a model for chromosome organization Journal : Phys. Rev. Lett. (2015) vol. 115, 198102
Publication(career) NUMBER AUTHOR H. Kang, Y.-G. Yoon, D. Thirumalai, C. Hyeon TITLE Confinement-induced glassy dynamics in a model for chromosome organization ARCHIVE 1506.01089 FILE JOURNAL Phys. Rev. Lett. (2015) vol. 115, 198102 ABSTRACT
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Title : Unexpected swelling of stiff DNA in a polydisperse crowded environment Journal : J. Am. Chem. Soc. (2015) vol. 137, 10970-10978
Publication(career) NUMBER AUTHOR H. Kang, N. M. Toan, C. Hyeon, D. Thirumalai TITLE Unexpected swelling of stiff DNA in a polydisperse crowded environment ARCHIVE 1505.01623 FILE JOURNAL J. Am. Chem. Soc. (2015) vol. 137, 10970-10978 ABSTRACT
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Title : Deciphering kinetic information from single molecule FRET data that show slow transitions Journal : J. Phys. Chem. B. (2015) vol. 119, 6974–6978
Publication(career) NUMBER AUTHOR S. E. Kim, I. -B. Lee, C. Hyeon, S.-C. Hong TITLE Deciphering kinetic information from single molecule FRET data that show slow transitions ARCHIVE FILE JOURNAL J. Phys. Chem. B. (2015) vol. 119, 6974–6978 ABSTRACT Single-molecule FRET is one of the most
powerful and widely used biophysical techniques in biological
sciences. It, however, often suffers from limitations such as
weak signal and limited measurement time intrinsic to single-
molecule fluorescence measurements. Despite several amelio-
rative measures taken to increase measurement time, it is
nearly impossible to acquire meaningful kinetic information on
a molecule if conformational transitions of the molecule are
ultraslow such that transition times (⟨¥ó⟩orig) are comparable to
or longer than measurement times (¥ät) limited by the finite
lifetime of fluorescent dye. Here, to extract a reliable and
accurate mean transition time from a series of short time traces
with ultraslow kinetics, we suggest a scheme called sHaRPer (serialized Handshaking Repeated Permutation with end removal) that concatenates multiple time traces. Because data acquisition frequency f and measurement time (¥ät) affect the estimation of mean transition time (⟨¥ó⟩), we provide mathematical criteria that f, ¥ät, and ⟨¥ó⟩ should satisfy to make ⟨¥ó⟩ close enough to ⟨¥ó⟩orig. Although application of the sHaRPer method has a potential risk of distorting the time constants of individual kinetic phases if the data are described with kinetic partitioning, we also provide criteria to avoid such distortion. Our sHaRPer method is a useful way to handle single-molecule data with slow transition kinetics. This study provides a practical guide to use sHaRPer.
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Title : Spring-loaded unraveling of a single SNARE complex by NSF in one round of ATP turnover Journal : Science (2015) vol. 347, 1485
Publication(career) NUMBER AUTHOR J.-K. Ryu, D. Min, S.-H. Rah, S. J. Kim, Y. Park, H. Kim, C. Hyeon, H. M. Kim, R. Jahn, T.-Y. Yoon TITLE Spring-loaded unraveling of a single SNARE complex by NSF in one round of ATP turnover ARCHIVE FILE JOURNAL Science (2015) vol. 347, 1485 ABSTRACT
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Title : Using Simulations and kinetic network models to reveal the dynamics and functions of riboswitches Journal : Methods in Enzymology (2015) vol. 553, 235-258
Publication(career) NUMBER AUTHOR J.-C. Lin, J. Yoon, C. Hyeon, D. Thirumalai TITLE Using Simulations and kinetic network models to reveal the dynamics and functions of riboswitches ARCHIVE FILE JOURNAL Methods in Enzymology (2015) vol. 553, 235-258 ABSTRACT
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Title : Effects of macromolecular crowding on the collapse of biopolymers Journal : Phys. Rev. Lett. (2015) vol. 114, 068303
Publication(career) NUMBER AUTHOR H. Kang, P. A. Pincus, C. Hyeon, D. Thirumalai TITLE Effects of macromolecular crowding on the collapse of biopolymers ARCHIVE 1409.5663 FILE JOURNAL Phys. Rev. Lett. (2015) vol. 114, 068303 ABSTRACT
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Title : Communication over the network of binary switches regulates the activation of A2A adenosine receptor Journal : PLoS Comp. Biol. (2015) 11(2): e1004044.
Publication(career) NUMBER AUTHOR Y. Lee, S. Choi, C. Hyeon TITLE Communication over the network of binary switches regulates the activation of A2A adenosine receptor ARCHIVE 1411.5360 FILE JOURNAL PLoS Comp. Biol. (2015) 11(2): e1004044. ABSTRACT
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Title : Programmed folding of DNA origami structures through single-molecule force control Journal : Nat. Commun (2014) vol. 5, 5654
Publication(career) NUMBER AUTHOR W. Bae , K. Kim, D. Min, J.-K. Ryu, C. Hyeon, T.-Y. Yoon TITLE Programmed folding of DNA origami structures through single-molecule force control ARCHIVE FILE JOURNAL Nat. Commun (2014) vol. 5, 5654 ABSTRACT
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Title : Destabilization of i-motif by submolar concentrations of a monovalent cation Journal : J. Phys. Chem. B. (2014) vol. 118, 4753-4760.
Publication(career) NUMBER AUTHOR S. Kim, I.-B. Lee, C. Hyeon, S.-C. Hong TITLE Destabilization of i-motif by submolar concentrations of a monovalent cation ARCHIVE FILE JOURNAL J. Phys. Chem. B. (2014) vol. 118, 4753-4760. ABSTRACT
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Title : Evidence of disorder in biological molecules from single molecule pulling experiments Journal : Phys. Rev. Lett.(2014) 112, 138101
Publication(career) NUMBER AUTHOR C. Hyeon, M. Hinczewski, D. Thirumalai TITLE Evidence of disorder in biological molecules from single molecule pulling experiments ARCHIVE 1402.6683 FILE JOURNAL Phys. Rev. Lett.(2014) 112, 138101 ABSTRACT
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Title : Development and applications of Coarse Grained models for RNA Journal : Israel J. Chem. (2014) vol. 54, 1358-1373
Publication(career) NUMBER AUTHOR C. Hyeon, N. A. Denesyuk, D. Thirumalai TITLE Development and applications of Coarse Grained models for RNA ARCHIVE 1402.6030 FILE JOURNAL Israel J. Chem. (2014) vol. 54, 1358-1373 ABSTRACT
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Title : Dynamical Transition and Heterogeneous Hydration Dynamics in RNA Journal : J. Phys. Chem. B. (2014) vol. 118, 7910-7919
Publication(career) NUMBER AUTHOR J. Yoon, J.-C. Lin, C. Hyeon, D. Thirumalai TITLE Dynamical Transition and Heterogeneous Hydration Dynamics in RNA ARCHIVE FILE JOURNAL J. Phys. Chem. B. (2014) vol. 118, 7910-7919 ABSTRACT
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Title : Destabilization of i-motif by submolar concentrations of a monovalent cation Journal : J. Phys. Chem. B. (2014) vol. 118, 4753-4760.
Publication(career) NUMBER AUTHOR S. Kim, I.-B. Lee, C. Hyeon, S.-C. Hong TITLE Destabilization of i-motif by submolar concentrations of a monovalent cation ARCHIVE FILE JOURNAL J. Phys. Chem. B. (2014) vol. 118, 4753-4760. ABSTRACT
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Title : Evidence of disorder in biological molecules from single molecule pulling experiments Journal : Phys. Rev. Lett. (2014) vol. 112, 138101
Publication(career) NUMBER AUTHOR C. Hyeon, M. Hinczewski, D. Thirumalai TITLE Evidence of disorder in biological molecules from single molecule pulling experiments ARCHIVE FILE JOURNAL Phys. Rev. Lett. (2014) vol. 112, 138101 ABSTRACT
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Title : Sequence-dependent folding landscapes of adenine riboswitch aptamers Journal : Phys. Chem. Chem. Phys. (2014) vol. 16, 6376
Publication(career) NUMBER AUTHOR J.-C. Lin, C. Hyeon, D. Thirumalai TITLE Sequence-dependent folding landscapes of adenine riboswitch aptamers ARCHIVE FILE JOURNAL Phys. Chem. Chem. Phys. (2014) vol. 16, 6376 ABSTRACT
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Title : Mapping the intramolecular signal transduction of G-protein coupled receptors Journal : Proteins: Struct. Func. Bioinfo. (2014) vol. 82, 727-743
Publication(career) NUMBER AUTHOR Y. Lee, S. Choi, & C. Hyeon TITLE Mapping the intramolecular signal transduction of G-protein coupled receptors ARCHIVE FILE JOURNAL Proteins: Struct. Func. Bioinfo. (2014) vol. 82, 727-743 ABSTRACT
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Title : Generalized Iterative Annealing Model for the action of RNA chaperones Journal : J. Chem. Phys. (2013) vol. 139, 121924
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Generalized Iterative Annealing Model for the action of RNA chaperones ARCHIVE FILE JOURNAL J. Chem. Phys. (2013) vol. 139, 121924 ABSTRACT
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Title : Urea-induced denaturation of preQ1-riboswitch Journal : J. Am. Chem. Soc. (2013) vol. 135, 12112
Publication(career) NUMBER AUTHOR J. Yoon, D. Thirumalai, C. Hyeon TITLE Urea-induced denaturation of preQ1-riboswitch ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (2013) vol. 135, 12112 ABSTRACT
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Title : Real-Time Observation of Multiple Protein-Complex Formation with Single-Molecule FRET Journal : J. Am. Chem. Soc. (2013) vol. 135, 10254
Publication(career) NUMBER AUTHOR W. Bae, M.-G. Choi, C. Hyeon, Y.-K. Shin, T.-Y. Yoon TITLE Real-Time Observation of Multiple Protein-Complex Formation with Single-Molecule FRET ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (2013) vol. 135, 10254 ABSTRACT
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Title : Mechanical unzipping and rezipping of a single SNARE complex reveals hysteresis as a force-generating mechanism Journal : Nat. Commun. (2013) vol. 4, 1705
Publication(career) NUMBER AUTHOR D. Min, K. Kim, C. Hyeon, Y. H. Cho, Y.-K. Shin, T.-Y. Yoon TITLE Mechanical unzipping and rezipping of a single SNARE complex reveals hysteresis as a force-generating mechanism ARCHIVE FILE JOURNAL Nat. Commun. (2013) vol. 4, 1705 ABSTRACT
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Title : Real-time single-molecule co-immunoprecipitation analyses reveal cancer-specific Ras signaling dynamics Journal : Nat. Commun. (2013) vol. 4, 1505
Publication(career) NUMBER AUTHOR H.-W. Lee, T. Kyung, J. Yoo, T. Kim, C. Chung, J.Y. Ryu, H. Lee, K. Park, S. Lee, W.D. Jones, D.-S. Lim, C. Hyeon, W.D. Heo, T.-Y. Yoon TITLE Real-time single-molecule co-immunoprecipitation analyses reveal cancer-specific Ras signaling dynamics ARCHIVE FILE JOURNAL Nat. Commun. (2013) vol. 4, 1505 ABSTRACT
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Title : RNA under Tension: Folding Landscapes, Kinetic Partitioning Mechanism, and Molecular Tensegrity Journal : J. Phys. Chem. Lett. (2012) vol. 3, 3616
Publication(career) NUMBER AUTHOR J.-C. Lin, C. Hyeon, D. Thirumalai TITLE RNA under Tension: Folding Landscapes, Kinetic Partitioning Mechanism, and Molecular Tensegrity ARCHIVE FILE JOURNAL J. Phys. Chem. Lett. (2012) vol. 3, 3616 ABSTRACT
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Title : The origin of minus-end directionality and mechanochemistry of Ncd motors Journal : PLoS Comp. Biol. (2012) vol. 8, e1002783
Publication(career) NUMBER AUTHOR B. Jana, C. Hyeon, J. N. Onuchic TITLE The origin of minus-end directionality and mechanochemistry of Ncd motors ARCHIVE FILE JOURNAL PLoS Comp. Biol. (2012) vol. 8, e1002783 ABSTRACT
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Title : Hidden Complexity in the Isomerization Dynamics of Holliday Junctions Journal : Nature Chem. (2012) vol.4, 907
Publication(career) NUMBER AUTHOR C. Hyeon, J. Lee, J. Yoon, S. Hohng, D. Thirumalai TITLE Hidden Complexity in the Isomerization Dynamics of Holliday Junctions ARCHIVE FILE JOURNAL Nature Chem. (2012) vol.4, 907 ABSTRACT
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Title : Weak temporal signals can synchronize and accelerate the transition dynamics of biopolymers under tension Journal : Proc. Natl. Acad. Sci. (2012) vol. 109, 14410
Publication(career) NUMBER AUTHOR W. K. Kim, C. Hyeon, W. Sung TITLE Weak temporal signals can synchronize and accelerate the transition dynamics of biopolymers under tension ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. (2012) vol. 109, 14410 ABSTRACT
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Title : Multiple barriers in forced rupture of protein complexes Journal : J. Chem. Phys. (2012) vol. 137, 055103
Publication(career) NUMBER AUTHOR C. Hyeon and. D. Thirumalai TITLE Multiple barriers in forced rupture of protein complexes ARCHIVE FILE JOURNAL J. Chem. Phys. (2012) vol. 137, 055103 ABSTRACT
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Title : Efficient Functional Delivery of siRNA using Mesoporous Silica Nanoparticles with Ultralarge Pores Journal : Small (2012) vol. 8, 1752
Publication(career) NUMBER AUTHOR H.-K. Na, M.-H. Kim, K. Park, S.-R. Ryoo, K.E. Lee, H. Jeon, R. Ryoo, C. Hyeon, D.-H. Min TITLE Efficient Functional Delivery of siRNA using Mesoporous Silica Nanoparticles with Ultralarge Pores ARCHIVE FILE JOURNAL Small (2012) vol. 8, 1752 ABSTRACT
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Title : Force-induced Unbinding Dynamics in a Multidimensional Free Energy Landscape Journal : Bull. Korean Chem. Soc. (2012) vol. 33, 897
Publication(career) NUMBER AUTHOR C. Hyeon TITLE Force-induced Unbinding Dynamics in a Multidimensional Free Energy Landscape ARCHIVE FILE JOURNAL Bull. Korean Chem. Soc. (2012) vol. 33, 897 ABSTRACT
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Title : Chain Length Determines the Folding Rates of RNA Journal : Biophys. J. (2012) 102, L11-L13
Publication(career) NUMBER AUTHOR C. Hyeon, D. Thirumalai TITLE Chain Length Determines the Folding Rates of RNA ARCHIVE FILE JOURNAL Biophys. J. (2012) 102, L11-L13 ABSTRACT
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Title : A structural perspective on the dynamics of kinesin motors Journal : Biophys. J. (2011) vol. 101, 2749
Publication(career) NUMBER AUTHOR C.Hyeon, J. N. Onuchic TITLE A structural perspective on the dynamics of kinesin motors ARCHIVE FILE JOURNAL Biophys. J. (2011) vol. 101, 2749 ABSTRACT
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Title : Link between Allosteric Signal Transduction and Functional Dynamics in a Multisubunit Enzyme: S-Adenosylhomocysteine Hydrolase Journal : J. Am. Chem. Soc. (2011) 113, 19807-19815
Publication(career) NUMBER AUTHOR Y. Lee, LS Jeong, S. Choi, C. Hyeon TITLE Link between Allosteric Signal Transduction and Functional Dynamics in a Multisubunit Enzyme: S-Adenosylhomocysteine Hydrolase ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (2011) 113, 19807-19815 ABSTRACT
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Title : Capturing the essence of folding and functions of biomolecules using Coarse-Grained models Journal : Nature Communication (2011) vol. 2, 487
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Capturing the essence of folding and functions of biomolecules using Coarse-Grained models ARCHIVE FILE JOURNAL Nature Communication (2011) vol. 2, 487 ABSTRACT
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Title : Compaction and Tensile Forces Determine the Accuracy of Folding Landscape Parameters from Single Molecule Pulling Experiments Journal : Phys. Rev. Lett. (2011) 106, 138102
Publication(career) NUMBER AUTHOR Greg Morrison, Changbong Hyeon, Michael Hinczewski TITLE Compaction and Tensile Forces Determine the Accuracy of Folding Landscape Parameters from Single Molecule Pulling Experiments ARCHIVE FILE prl2011.pdf JOURNAL Phys. Rev. Lett. (2011) 106, 138102 ABSTRACT We establish a framework for assessing whether the transition state location of a biopolymer, which can be inferred from single molecule pulling experiments, corresponds to the ensemble of structures that have equal probability of reaching either the folded or unfolded states (Pfold=0.5). Using results for the forced unfolding of a RNA hairpin, an exactly soluble model, and an analytic theory, we show that Pfold is solely determined by s, an experimentally measurable molecular tensegrity parameter, which is a ratio of the tensile force and a compaction force that stabilizes the folded state. Applications to folding landscapes of DNA hairpins and a leucine zipper with two barriers provide a structural interpretation of single molecule experimental data. Our theory can be used to assess whether molecular extension is a good reaction coordinate using measured free energy profiles.
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Title : Theoretical Perspectives on Protein Folding Journal : Annu. Rev. Biophys. (2010) vol. 39, 159-183
Publication(career) NUMBER AUTHOR D. Thirumalai, EP Obrien, G. Morrison, C. Hyeon TITLE Theoretical Perspectives on Protein Folding ARCHIVE FILE JOURNAL Annu. Rev. Biophys. (2010) vol. 39, 159-183 ABSTRACT
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Title : Dynamic Ca2+-dependent stimulation of vesicle fusion by membrane-anchored synaptotagmin 1 Journal : Science (2010) vol. 328, 760-763
Publication(career) NUMBER AUTHOR H. -K. Lee, Y. Yang, Z. Su, C. Hyeon, T. -S. Lee, H. -W. Lee, D. -H. Kwon, Y. -K. Shin and T. -Y. Yoon TITLE Dynamic Ca2+-dependent stimulation of vesicle fusion by membrane-anchored synaptotagmin 1 ARCHIVE FILE JOURNAL Science (2010) vol. 328, 760-763 ABSTRACT
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Title : Urea destabilizes RNA by forming stacking interaction and multiple hydrogen bonds with nucleic acid bases Journal : J. Am. Chem. Soc. (2009) Vol. 131, 17759-17761
Publication(career) NUMBER AUTHOR U. D. Priyakumar, C. Hyeon, D. Thirumalai and A. D. MacKerell Jr. TITLE Urea destabilizes RNA by forming stacking interaction and multiple hydrogen bonds with nucleic acid bases ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (2009) Vol. 131, 17759-17761 ABSTRACT
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Title : Refolding dynamics of stretched biopolymers upon force-quench Journal : Proc. Natl. Acad. Sci. USA (2009) Vol. 106, 20288-20293
Publication(career) NUMBER AUTHOR C. Hyeon, G. Morrison, D. L. Pincus and D. Thirumalai TITLE Refolding dynamics of stretched biopolymers upon force-quench ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2009) Vol. 106, 20288-20293 ABSTRACT
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Title : Metal Ion Dependence of Cooperative Collapse Transitions in RNA Journal : J. Mol. Biol. (2009) Vol. 393, 753-764
Publication(career) NUMBER AUTHOR S. Moghaddam, G. Caliskan, S. Chauhan, C. Hyeon, R. M. Briber, D. Thirumalai and S. A. Woodson TITLE Metal Ion Dependence of Cooperative Collapse Transitions in RNA ARCHIVE FILE JOURNAL J. Mol. Biol. (2009) Vol. 393, 753-764 ABSTRACT
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Title : Kinesins Backsteps under Mechanical Load Journal : Phys. Chem. Chem. Phys. (2009) vol. 11, 4899-4910
Publication(career) NUMBER AUTHOR C. Hyeon, S. Klumpp and J. N. Onuchic TITLE Kinesins Backsteps under Mechanical Load ARCHIVE FILE JOURNAL Phys. Chem. Chem. Phys. (2009) vol. 11, 4899-4910 ABSTRACT
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Title : Ligand-induced global transition in the catalytic domain of protein kinase A Journal : Proc. Natl. Acad. Sci. USA (2009) vol. 106, 3023-3028
Publication(career) NUMBER AUTHOR C. Hyeon, P. A. Jennings, J. A. Adams and J. N. Onuchic TITLE Ligand-induced global transition in the catalytic domain of protein kinase A ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2009) vol. 106, 3023-3028 ABSTRACT
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Title : Force dependent hopping rates of RNA hairpins can be estimated from accurate measurement of the folding landscapes Journal : Proc. Natl. Acad. Sci. USA (2008) vol. 105, 9604-9609
Publication(career) NUMBER AUTHOR C. Hyeon, G. Morrison and D. Thirumalai TITLE Force dependent hopping rates of RNA hairpins can be estimated from accurate measurement of the folding landscapes ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2008) vol. 105, 9604-9609 ABSTRACT
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Title : Effects of Trimethylamine N-Oxide (TMAO) and Crowding Agents on the stability of RNA hairpins Journal : J. Am. Chem. Soc. (2008) vol. 130. 7364-7372
Publication(career) NUMBER AUTHOR D. L. Pincus, C. Hyeon and D. Thirumalai TITLE Effects of Trimethylamine N-Oxide (TMAO) and Crowding Agents on the stability of RNA hairpins ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (2008) vol. 130. 7364-7372 ABSTRACT
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Title : Kinetics of loop formation in polymer chains Journal : J. Phys. Chem. B (2008) vol. 112 6094-6106
Publication(career) NUMBER AUTHOR N. M. Toan, G. Morrison, C. Hyeon and D. Thirumalai TITLE Kinetics of loop formation in polymer chains ARCHIVE FILE JOURNAL J. Phys. Chem. B (2008) vol. 112 6094-6106 ABSTRACT
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Title : Multiple probes are required to explore and control the rugged energy landscape of RNA hairpins Journal : J. Am. Chem. Soc. (2008) vol. 130 1538-1539
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Multiple probes are required to explore and control the rugged energy landscape of RNA hairpins ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (2008) vol. 130 1538-1539 ABSTRACT
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Title : Revealing the bifurcation in the unfolding pathways of GFP using single molecule experiments and simulations Journal : Proc. Natl. Acad. Sci. USA (2007) vol. 104 20268-20273
Publication(career) NUMBER AUTHOR M. Michkler, R. I. Dima, H. Dietz, C. Hyeon, D. Thirumalai and M. Rief TITLE Revealing the bifurcation in the unfolding pathways of GFP using single molecule experiments and simulations ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2007) vol. 104 20268-20273 ABSTRACT
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Title : Mechanical control of the directional stepping dynamics of the kinesin motor Journal : Proc. Natl. Acad. Sci. (2007) vol. 104 17382-17387
Publication(career) NUMBER AUTHOR C. Hyeon and J. N. Onuchic, TITLE Mechanical control of the directional stepping dynamics of the kinesin motor ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. (2007) vol. 104 17382-17387 ABSTRACT
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Title : Stretching Homopolymers Journal : Macromolecules (2007) vol. 40 7343-7353
Publication(career) NUMBER AUTHOR G. Morrison, C. Hyeon, N. M. Toan, B. -Y. Ha and D. Thirumalai TITLE Stretching Homopolymers ARCHIVE FILE JOURNAL Macromolecules (2007) vol. 40 7343-7353 ABSTRACT
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Title : Charge density of divalent metal cations determines RNA stability Journal : Soc. (2007) vol. 129 2676-2682
Publication(career) NUMBER AUTHOR E. Koculi, C. Hyeon, D. Thirumalai, and S. A. Woodson, J. Am. Chem TITLE Charge density of divalent metal cations determines RNA stability ARCHIVE FILE JOURNAL Soc. (2007) vol. 129 2676-2682 ABSTRACT
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Title : Internal strain regulates the nucleotide binding site of the kinesin leading head Journal : Proc. Natl. Acad. Sci. USA (2007) vol. 104 2175-2180
Publication(career) NUMBER AUTHOR C. Hyeon and J. N. Onuchic TITLE Internal strain regulates the nucleotide binding site of the kinesin leading head ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2007) vol. 104 2175-2180 ABSTRACT
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Title : Mechanical unfolding of RNA: From hairpins to structures with internal multiloops Journal : Biophys. J. (2007) vol. 92 731-743
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Mechanical unfolding of RNA: From hairpins to structures with internal multiloops ARCHIVE FILE JOURNAL Biophys. J. (2007) vol. 92 731-743 ABSTRACT
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Title : Dynamics of allosteric transitions in GroEL Journal : Proc. Natl. Acad. Sci. USA (2006) vol. 103 18939-18944
Publication(career) NUMBER AUTHOR C. Hyeon, G.H. Lorimer and D. Thirumalai TITLE Dynamics of allosteric transitions in GroEL ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2006) vol. 103 18939-18944 ABSTRACT
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Title : Size, Shape, and flexibility of RNA structures Journal : Phys. (2006) vol. 125 194905
Publication(career) NUMBER AUTHOR C. Hyeon, R. I. Dima, and D. Thirumalai, J. Chem TITLE Size, Shape, and flexibility of RNA structures ARCHIVE FILE JOURNAL Phys. (2006) vol. 125 194905 ABSTRACT
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Title : Pathways and kinetic barriers in mechanical unfolding and refolding of RNA and proteins Journal : Structure (2006) vol. 14 1633-1645
Publication(career) NUMBER AUTHOR C. Hyeon, R.I. Dima, and D. Thirumalai TITLE Pathways and kinetic barriers in mechanical unfolding and refolding of RNA and proteins ARCHIVE FILE JOURNAL Structure (2006) vol. 14 1633-1645 ABSTRACT
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Title : Forced-Unfolding and Force-Quench Refolding of RNA Hairpins Journal : Biophys. J. (2006) vol. 90 3410-3427
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Forced-Unfolding and Force-Quench Refolding of RNA Hairpins ARCHIVE FILE JOURNAL Biophys. J. (2006) vol. 90 3410-3427 ABSTRACT
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Title : Kinetics of interior loop formation in semiflexible chains Journal : J. Chem. Phys. (2006) vol. 124 104905
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai, TITLE Kinetics of interior loop formation in semiflexible chains ARCHIVE FILE JOURNAL J. Chem. Phys. (2006) vol. 124 104905 ABSTRACT
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Title : Persistence Length Changes Dramatically as RNA Folds Journal : Phys. Rev. Lett. (2005) vol. 95 268303
Publication(career) NUMBER AUTHOR G. Caliskan, C. Hyeon, U. Perez-Salas, B.M. Briber, S.A. Woodson, and D. Thirumalai TITLE Persistence Length Changes Dramatically as RNA Folds ARCHIVE FILE JOURNAL Phys. Rev. Lett. (2005) vol. 95 268303 ABSTRACT
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Title : Extracting Stacking Interaction Parameters for RNA from the Data Set of Native Structures Journal : J. Mol. Biol. (2005) vol. 347 53-69
Publication(career) NUMBER AUTHOR R.I. Dima, C. Hyeon, and D. Thirumalai TITLE Extracting Stacking Interaction Parameters for RNA from the Data Set of Native Structures ARCHIVE FILE JOURNAL J. Mol. Biol. (2005) vol. 347 53-69 ABSTRACT
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Title : Mechanical unfolding of RNA hairpins Journal : Proc. Natl. Acad. Sci. USA (2005) vol. 102 6789-6794
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Mechanical unfolding of RNA hairpins ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2005) vol. 102 6789-6794 ABSTRACT
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Title : Can energy landscape roughness of proteins and RNA be measured using mechanical unfolding experiments? Journal : Proc. Natl. Acad. Sci. USA (2003) vol. 100 10249-10253
Publication(career) NUMBER AUTHOR C. Hyeon and D. Thirumalai TITLE Can energy landscape roughness of proteins and RNA be measured using mechanical unfolding experiments? ARCHIVE FILE JOURNAL Proc. Natl. Acad. Sci. USA (2003) vol. 100 10249-10253 ABSTRACT
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Title : One-pot Template Synthesis and Properties of a Molecular Bowl: Dodecaaza Macrotetracycle with mu(3)-Oxo and mu(3)-Hydroxo Tricopper(II) Cores Journal : J. Am. Chem. Soc. (1998) vol. 120, 3819-3820
Publication(career) NUMBER AUTHOR M. Paik Suh, M.Y. Han, J.H.Lee K.S.Min, and C. Hyeon. TITLE One-pot Template Synthesis and Properties of a Molecular Bowl: Dodecaaza Macrotetracycle with mu(3)-Oxo and mu(3)-Hydroxo Tricopper(II) Cores ARCHIVE FILE JOURNAL J. Am. Chem. Soc. (1998) vol. 120, 3819-3820 ABSTRACT
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Title : Effects of a quantum-mechanically driven two-state gating mode on the diffusion-influenced bimolecular reactions Journal : Phys. (1997) vol. 107 9864
Publication(career) NUMBER AUTHOR Y. Jung, C. Hyeon, S. Shin, and S. Lee, J. Chem TITLE Effects of a quantum-mechanically driven two-state gating mode on the diffusion-influenced bimolecular reactions ARCHIVE FILE JOURNAL Phys. (1997) vol. 107 9864 ABSTRACT
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- 2010-present Professor of Computational Sciences, Korea Institute for Advanced Study, Seoul
- 2008-2009 Assistant Professor, Chemistry, Chung-Ang University, Seoul
- 2006-2008 Postdoctoral Research Associate, Center for Theoretical Biological Physics, UC San Diego
- 2000-2005 Ph.D., Chemical Physics, University of Maryland, College Park
- 1995-1997, M.S., Chemistry, Seoul National University
- 1991-1995, B.S., Chemistry, Seoul National University
- Office:7302 / TEL) 82-2-958-3810 / FAX) 82-2-958-3820
- School of School of Computational Sciences, Korea Institute for Advanced Study
85 Hoegiro, Dongdaemun-gu, Seoul 02455, Korea
