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ArticlesPeer ReviewedFull Text
A maximum-entropy model to predict 3D structural ensembles of chromatin from pairwise distances with applications to interphase chromosomes and structural variants
Author / Creator:Shi, Guang ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2023-03, Vol.14 (1), p.1150-1150, Article 1150
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Capturing the essence of folding and functions of biomolecules using coarse-grained models
Author / Creator:Hyeon, Changbong ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2011-09, Vol.2 (1), p.487-487, Article 487
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Conformational heterogeneity in human interphase chromosome organization reconciles the FISH and Hi-C paradox
Author / Creator:Shi, Guang ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2019-08, Vol.10 (1), p.3894-10, Article 3894
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Interphase human chromosome exhibits out of equilibrium glassy dynamics
Author / Creator:Shi, Guang ; Liu, Lei ; Hyeon, Changbong ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-08, Vol.9 (1), p.3161-13, Article 3161
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From Hi-C Contact Map to Three-Dimensional Organization of Interphase Human Chromosomes
Author / Creator:Shi, Guang ; Thirumalai, D.
Publisher:College Park: American Physical Society
Journal title:Physical review. X, 2021-03, Vol.11 (1), p.011051, Article 011051
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Protein folding guides disulfide bond formation
Author / Creator:Qin, Meng ; Wang, Wei ; Thirumalai, D.
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2015-09, Vol.112 (36), p.11241-11246
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Theory and simulations for RNA folding in mixtures of monovalent and divalent cations
Author / Creator:Nguyen, Hung T. ; Hori, Naoto ; Thirumalai, D.
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2019-10, Vol.116 (42), p.21022-21030
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Chain organization of human interphase chromosome determines the spatiotemporal dynamics of chromatin loci
Author / Creator:Liu, Lei ; Shi, Guang ; Thirumalai, D ; Hyeon, Changbong
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2018-12, Vol.14 (12), p.e1006617-e1006617
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How do metal ions direct ribozyme folding?
Author / Creator:Denesyuk, Natalia A. ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature chemistry, 2015-10, Vol.7 (10), p.793-801
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Differences in the free energies between the excited states of A β 40 and A β 42 monomers encode their aggregation propensities
Author / Creator:Chakraborty, Debayan ; Straub, John E ; Thirumalai, D
Publisher:United States
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2020-08, Vol.117 (33), p.19926-19937
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Condensates in RNA repeat sequences are heterogeneously organized and exhibit reptation dynamics
Author / Creator:Nguyen, Hung T. ; Hori, Naoto ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature chemistry, 2022-07, Vol.14 (7), p.775-785
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Differences in the free energies between the excited states of Aβ40 and Aβ42 monomers encode their aggregation propensities
Author / Creator:Chakraborty, Debayan ; Straub, John E. ; Thirumalai, D.
Publisher:Washington: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2020-08, Vol.117 (33), p.19926-19937
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Theory and simulations of condensin mediated loop extrusion in DNA
Author / Creator:Takaki, Ryota ; Dey, Atreya ; Shi, Guang ; Thirumalai, D.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-10, Vol.12 (1), p.5865-5865, Article 5865
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Urea denaturation by stronger dispersion interactions with proteins than water implies a 2-stage unfolding
Author / Creator:Hua, Lan ; Zhou, Ruhong ; Thirumalai, D ; Berne, B.J
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2008-11, Vol.105 (44), p.16928-16933
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Parsing the roles of neck-linker docking and tethered head diffusion in the stepping dynamics of kinesin
Author / Creator:Zhang, Zhechun ; Goldtzvik, Yonathan ; Thirumalai, D.
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2017-11, Vol.114 (46), p.E9838-E9845
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Impact of membrane lipid composition on the structure and stability of the transmembrane domain of amyloid precursor protein
Author / Creator:Dominguez, Laura ; Foster, Leigh ; Straub, John E. ; Thirumalai, D.
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2016-09, Vol.113 (36), p.E5281-E5287
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Synergy between intrinsically disordered domains and structured proteins amplifies membrane curvature sensing
Author / Creator:Zeno, Wade F. ; Baul, Upayan ; Snead, Wilton T. ; DeGroot, Andre C. M. ; Wang, Liping ; Lafer, Eileen M. ; Thirumalai, D. ; Stachowiak, Jeanne C.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-10, Vol.9 (1), p.4152-14, Article 4152
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Structural basis for the preservation of a subset of topologically associating domains in interphase chromosomes upon cohesin depletion
Author / Creator:Jeong, Davin ; Shi, Guang ; Li, Xin ; Thirumalai, D
Publisher:England: eLife Sciences Publications Ltd
Journal title:eLife, 2024-03, Vol.12
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Signalling networks and dynamics of allosteric transitions in bacterial chaperonin GroEL: implications for iterative annealing of misfolded proteins
Author / Creator:Thirumalai, D. ; Hyeon, Changbong
Publisher:England: The Royal Society
Journal title:Philosophical transactions of the Royal Society of London. Series B. Biological sciences, 2018-06, Vol.373 (1749), p.20170182-20170182
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ArticlesPeer ReviewedFull Text
Directly measuring single-molecule heterogeneity using force spectroscopy
Author / Creator:Hinczewski, Michael ; Hyeon, Changbong ; Thirumalai, D.
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2016-07, Vol.113 (27), p.E3852-E3861
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Showing 1 to 20 of 369 results

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A maximum-entropy model to predict 3D structural ensembles of chromatin from pairwise distances with applications to interphase chromosomes and structural variants

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Capturing the essence of folding and functions of biomolecules using coarse-grained models

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Conformational heterogeneity in human interphase chromosome organization reconciles the FISH and Hi-C paradox

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Interphase human chromosome exhibits out of equilibrium glassy dynamics

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From Hi-C Contact Map to Three-Dimensional Organization of Interphase Human Chromosomes

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Protein folding guides disulfide bond formation

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Theory and simulations for RNA folding in mixtures of monovalent and divalent cations

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Chain organization of human interphase chromosome determines the spatiotemporal dynamics of chromatin loci

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How do metal ions direct ribozyme folding?

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Differences in the free energies between the excited states of A β 40 and A β 42 monomers encode their aggregation propensities

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Condensates in RNA repeat sequences are heterogeneously organized and exhibit reptation dynamics

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Differences in the free energies between the excited states of Aβ40 and Aβ42 monomers encode their aggregation propensities

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Theory and simulations of condensin mediated loop extrusion in DNA

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Urea denaturation by stronger dispersion interactions with proteins than water implies a 2-stage unfolding

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Parsing the roles of neck-linker docking and tethered head diffusion in the stepping dynamics of kinesin

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Impact of membrane lipid composition on the structure and stability of the transmembrane domain of amyloid precursor protein

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Synergy between intrinsically disordered domains and structured proteins amplifies membrane curvature sensing

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Structural basis for the preservation of a subset of topologically associating domains in interphase chromosomes upon cohesin depletion

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Signalling networks and dynamics of allosteric transitions in bacterial chaperonin GroEL: implications for iterative annealing of misfolded proteins

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Directly measuring single-molecule heterogeneity using force spectroscopy

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