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Author: D. Thirumalai

Rankings

  • All-time downloads: 18,039 (rank: 11,823 (tie) )
  • Categories:
    • biophysics: 15,573 (rank: 51 )
    • cancer biology: 1,977 (rank: 3,563 )
    • cell biology: 489 (rank: 21,939 (tie) )

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Preprints

Cell growth rate dictates the onset of glass to fluid-like transition and long time super-diffusion in an evolving cell colony

biophysics more details view paper
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Interphase Human Chromosome Exhibits Out of Equilibrium Glassy Dynamics

biophysics more details view paper
  • Downloaded 820 times
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    • Site-wide: 32,835
    • In biophysics: 980
  • Year to date:
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  • Since beginning of last month:
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Architecture of human interphase chromosome determines the spatiotemporal dynamics of chromatin loci

biophysics more details view paper
  • Downloaded 749 times
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    • Site-wide: 37,364
    • In biophysics: 1,162
  • Year to date:
    • Site-wide: 140,127
  • Since beginning of last month:
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Interplay of Driver, Mini-Driver, and Deleterious Passenger Mutations on Cancer Progression

cancer biology more details view paper
  • Downloaded 684 times
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    • Site-wide: 42,192
    • In cancer biology: 1,159
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Share, but unequally: A plausible mechanism for emergence and maintenance of intratumor heterogeneity

cancer biology more details view paper
  • Downloaded 672 times
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    • Site-wide: 43,141
    • In cancer biology: 1,188
  • Year to date:
    • Site-wide: 139,374
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Dual Role of Cell-Cell Adhesion In Tumor Suppression and Proliferation Due to Collective Mechanosensing

cancer biology more details view paper
  • Downloaded 621 times
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    • Site-wide: 47,758
    • In cancer biology: 1,359
  • Year to date:
    • Site-wide: 78,283
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    • Site-wide: 116,970

Universal nature of collapsibility in the context of protein folding and evolution

biophysics more details view paper
  • Downloaded 613 times
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    • Site-wide: 48,601
    • In biophysics: 1,601
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    • Site-wide: 114,760
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Kinematics of the Lever Arm Swing in Myosin VI

biophysics more details view paper
  • Downloaded 600 times
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    • Site-wide: 49,895
    • In biophysics: 1,643
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Dynamics of Allosteric Transitions in Dynein

biophysics more details view paper
  • Downloaded 590 times
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    • In biophysics: 1,683
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Step-wise Hydration of Magnesium by Four Water Molecules Precedes Phosphate Release in a Myosin Motor

biophysics more details view paper
  • Downloaded 590 times
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    • Site-wide: 50,926
    • In biophysics: 1,679
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    • Site-wide: 32,536
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Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension

biophysics more details view paper
  • Downloaded 567 times
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    • Site-wide: 53,613
    • In biophysics: 1,787
  • Year to date:
    • Site-wide: 111,425
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How do metal ions direct ribozyme folding?

biophysics more details view paper
  • Downloaded 545 times
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    • Site-wide: 56,224
    • In biophysics: 1,884
  • Year to date:
    • Site-wide: 81,230
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    • Site-wide: 36,753

Processivity, velocity and universal characteristics of nucleic acid unwinding by helicases

biophysics more details view paper
  • Downloaded 514 times
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    • Site-wide: 60,357
    • In biophysics: 2,065
  • Year to date:
    • Site-wide: 111,119
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    • Site-wide: 35,509

Generalized Rayleigh-Plesset Theory for Cell Size Maintenance in Viruses and Bacteria

cell biology more details view paper
  • Downloaded 489 times
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    • Site-wide: 63,656
    • In cell biology: 2,801
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Protein Collapse is Encoded in the Folded State Architecture

biophysics more details view paper
  • Downloaded 488 times
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    • Site-wide: 63,864
    • In biophysics: 2,212
  • Year to date:
    • Site-wide: 115,093
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Conformational Heterogeneity in Human Interphase Chromosome Organization Reconciles the FISH and Hi-C Paradox

biophysics more details view paper
  • Downloaded 482 times
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    • Site-wide: 64,738
    • In biophysics: 2,249
  • Year to date:
    • Site-wide: 130,517
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Molecular Simulations of ion effects on the Thermodynamics of RNA Folding

biophysics more details view paper
  • Downloaded 466 times
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    • Site-wide: 67,238
    • In biophysics: 2,368
  • Year to date:
    • Site-wide: 116,958
  • Since beginning of last month:
    • Site-wide: 97,497

Discrete step sizes of molecular motors lead to bimodal non-Gaussian velocity distributions under force

biophysics more details view paper
  • Downloaded 464 times
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    • Site-wide: 67,520
    • In biophysics: 2,378
  • Year to date:
    • Site-wide: 113,299
  • Since beginning of last month:
    • Site-wide: 33,688

Charge fluctuation effects on the shape of flexible polyampholytes with applications to Intrinsically disordered proteins

biophysics more details view paper
  • Downloaded 464 times
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    • Site-wide: 67,530
    • In biophysics: 2,376
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    • Site-wide: 85,703
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Collapse Precedes Folding in Denaturant-Dependent Assembly of Ubiquitin

biophysics more details view paper
  • Downloaded 408 times
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    • Site-wide: 76,846
    • In biophysics: 2,800
  • Year to date:
    • Site-wide: 132,225
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Folding RNA in mixtures of monovalent and divalent cations: Theory and simulations

biophysics more details view paper
  • Downloaded 406 times
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    • Site-wide: 77,265
    • In biophysics: 2,811
  • Year to date:
    • Site-wide: 109,491
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On the Importance of Hydrodynamic Interactions in the Stepping Kinetics of Kinesin

biophysics more details view paper
  • Downloaded 381 times
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    • Site-wide: 81,825
    • In biophysics: 3,024
  • Year to date:
    • Site-wide: 148,228
  • Since beginning of last month:
    • Site-wide: 46,284

Optimal Information Transfer In Enzymatic Networks: A Field Theoretic Formulation

biophysics more details view paper
  • Downloaded 375 times
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    • Site-wide: 82,984
    • In biophysics: 3,084
  • Year to date:
    • Site-wide: 132,920
  • Since beginning of last month:
    • Site-wide: 58,587

Noise Control In Gene Regulatory Networks With Negative Feedback

biophysics more details view paper
  • Downloaded 358 times
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    • Site-wide: 86,601
    • In biophysics: 3,239
  • Year to date:
    • Site-wide: 131,275
  • Since beginning of last month:
    • Site-wide: 58,600

Folding PDZ2 domain using the Molecular Transfer Model

biophysics more details view paper
  • Downloaded 354 times
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    • Site-wide: 87,263
    • In biophysics: 3,269
  • Year to date:
    • Site-wide: 124,015
  • Since beginning of last month:
    • Site-wide: 53,027

Denaturants alter the flux through multiple pathways in the folding of PDZ domain

biophysics more details view paper
  • Downloaded 351 times
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    • Site-wide: 87,863
    • In biophysics: 3,300
  • Year to date:
    • Site-wide: 127,965
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    • Site-wide: 59,778

Ripping RNA by Force using Gaussian Network Models

biophysics more details view paper
  • Downloaded 341 times
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    • Site-wide: 90,141
    • In biophysics: 3,386
  • Year to date:
    • Site-wide: 104,886
  • Since beginning of last month:
    • Site-wide: 58,594

Sequence Determines the Switch in the Fibril Forming Regions in the Low-Complexity FUS Protein and Its Variants

biophysics more details view paper
  • Downloaded 314 times
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    • Site-wide: 96,231
    • In biophysics: 3,660
  • Year to date:
    • Site-wide: 17,906
  • Since beginning of last month:
    • Site-wide: 1,824

Processivity and Velocity for Motors Stepping on Periodic Tracks

biophysics more details view paper
  • Downloaded 308 times
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    • Site-wide: 97,564
    • In biophysics: 3,715
  • Year to date:
    • Site-wide: 118,563
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    • Site-wide: 85,386

Frictional effects on RNA folding: Speed limit and Kramers turnover

biophysics more details view paper
  • Downloaded 294 times
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    • Site-wide: 100,684
    • In biophysics: 3,851
  • Year to date:
    • Site-wide: 131,176
  • Since beginning of last month:
    • Site-wide: 111,749

Spatially heterogeneous dynamics of cells in a growing tumor spheroid: Comparison between Theory and Experiments

biophysics more details view paper
  • Downloaded 291 times
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    • Site-wide: 101,499
    • In biophysics: 3,887
  • Year to date:
    • Site-wide: 132,280
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    • Site-wide: 41,024

Charge density of cation determines inner versus outer shell coordination to phosphate in RNA

biophysics more details view paper
  • Downloaded 290 times
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    • Site-wide: 101,526
    • In biophysics: 3,896
  • Year to date:
    • Site-wide: 76,615
  • Since beginning of last month:
    • Site-wide: 77,318

Ion Condensation onto Ribozyme is Site-Specific and Fold-Dependent

biophysics more details view paper
  • Downloaded 288 times
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    • Site-wide: 102,066
    • In biophysics: 3,906
  • Year to date:
    • Site-wide: 146,711
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    • Site-wide: 30,259

Molecular chaperones maximize the native state yield per unit time by driving substrates out of equilibrium

biophysics more details view paper
  • Downloaded 270 times
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    • Site-wide: 106,304
    • In biophysics: 4,074
  • Year to date:
    • Site-wide: 135,520
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    • Site-wide: 59,669

Interface residues that drive allosteric transitions also control the assembly of L-lactate dehydrogenase

biophysics more details view paper
  • Downloaded 257 times
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    • Site-wide: 109,591
    • In biophysics: 4,190
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    • Site-wide: 142,680
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Signaling Networks and Dynamics of Allosteric Transitions in Bacterial Chaperonin GroEL: Implications for Iterative Annealing of Misfolded Proteins

biophysics more details view paper
  • Downloaded 237 times
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    • Site-wide: 114,529
    • In biophysics: 4,390
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Parsing the roles of neck-linker docking and tethered head diffusion in the stepping dynamics of kinesin

biophysics more details view paper
  • Downloaded 220 times
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    • Site-wide: 119,023
    • In biophysics: 4,546
  • Year to date:
    • Site-wide: 153,386
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Monovalent ions modulate the flux through multiple folding pathways of an RNA pseudoknot

biophysics more details view paper
  • Downloaded 201 times
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    • Site-wide: 123,517
    • In biophysics: 4,723
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Forced-rupture of Cell-Adhesion Complexes Reveals abrupt switch between two Brittle States

biophysics more details view paper
  • Downloaded 192 times
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    • Site-wide: 125,747
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Far from equilibrium dynamics of tracer particles embedded in a growing multicellular spheroid

biophysics more details view paper
  • Downloaded 184 times
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    • Site-wide: 127,825
    • In biophysics: 4,882
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Dramatic shape changes occur as Cytochrome c folds

biophysics more details view paper
  • Downloaded 162 times
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    • Site-wide: 132,942
    • In biophysics: 5,078
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    • Site-wide: 108,659
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Multi-Scale Coarse Grained Model for the Stepping of Molecular Motors with application to Kinesin.

biophysics more details view paper
  • Downloaded 146 times
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    • Site-wide: 136,427
    • In biophysics: 5,213
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On the emergence of orientational order in folded proteins with implications for allostery

biophysics more details view paper
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    • Site-wide: 148,453
    • In biophysics: 5,699
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Temperature and Guanidine Hydrochloride effects on the folding thermodynamics of WW domain and variants

biophysics more details view paper
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    • Site-wide: 152,596
    • In biophysics: 5,861
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