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Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 57,553 bioRxiv papers from 264,961 authors.

Author: Vijay S Pande

Rankings

  • All-time downloads: 11,880 (rank: 2,647 (tie) out of 264,961)
  • Categories:
    • bioinformatics: 1,713 (rank: 4,111 (tie) out of 23,134)
    • biophysics: 9,877 (rank: 15 out of 9,880)
    • neuroscience: 290 (rank: 25,790 (tie) out of 41,418)

Downloads per author, site-wide

Preprints

MDTraj: a modern, open library for the analysis of molecular dynamics trajectories

bioinformatics more details view paper
  • Downloaded 1,323 times
  • Download rankings, all-time:
    • Site-wide: 4,103 out of 57,553
    • In bioinformatics: 815 out of 5,869
  • Year to date:
    • Site-wide: 40,987 out of 57,553
  • Since beginning of last month:
    • Site-wide: 41,718 out of 57,553

OpenMM 7: Rapid Development of High Performance Algorithms for Molecular Dynamics

biophysics more details view paper
  • Downloaded 1,218 times
  • Download rankings, all-time:
    • Site-wide: 4,682 out of 57,553
    • In biophysics: 124 out of 2,437
  • Year to date:
    • Site-wide: 26,208 out of 57,553
  • Since beginning of last month:
    • Site-wide: 18,061 out of 57,553

MSMBuilder: Statistical Models for Biomolecular Dynamics

biophysics more details view paper
  • Downloaded 1,065 times
  • Download rankings, all-time:
    • Site-wide: 5,861 out of 57,553
    • In biophysics: 159 out of 2,437
  • Year to date:
    • Site-wide: 19,263 out of 57,553
  • Since beginning of last month:
    • Site-wide: 25,641 out of 57,553

Kinetic Machine Learning Unravels Ligand-Directed Conformational Change of μ Opioid Receptor

biophysics more details view paper
  • Downloaded 978 times
  • Download rankings, all-time:
    • Site-wide: 6,728 out of 57,553
    • In biophysics: 188 out of 2,437
  • Year to date:
    • Site-wide: 19,997 out of 57,553
  • Since beginning of last month:
    • Site-wide: 13,883 out of 57,553

Energy Conservation as a Measure of Simulation Accuracy

biophysics more details view paper
  • Downloaded 968 times
  • Download rankings, all-time:
    • Site-wide: 6,840 out of 57,553
    • In biophysics: 192 out of 2,437
  • Year to date:
    • Site-wide: 8,147 out of 57,553
  • Since beginning of last month:
    • Site-wide: 10,431 out of 57,553

Bayesian Energy Landscape Tilting: Towards Concordant Models of Molecular Ensembles

biophysics more details view paper
  • Downloaded 807 times
  • Download rankings, all-time:
    • Site-wide: 9,090 out of 57,553
    • In biophysics: 257 out of 2,437
  • Year to date:
    • Site-wide: 46,394 out of 57,553
  • Since beginning of last month:
    • Site-wide: 42,232 out of 57,553

A Fast 3 x N Matrix Multiply Routine for Calculation of Protein RMSD

biophysics more details view paper
  • Downloaded 760 times
  • Download rankings, all-time:
    • Site-wide: 9,904 out of 57,553
    • In biophysics: 297 out of 2,437
  • Year to date:
    • Site-wide: 32,819 out of 57,553
  • Since beginning of last month:
    • Site-wide: 29,516 out of 57,553

Transfer Learning from Markov models leads to efficient sampling of related systems

biophysics more details view paper
  • Downloaded 676 times
  • Download rankings, all-time:
    • Site-wide: 11,712 out of 57,553
    • In biophysics: 357 out of 2,437
  • Year to date:
    • Site-wide: 22,922 out of 57,553
  • Since beginning of last month:
    • Site-wide: 13,668 out of 57,553

Modelling Intrinsically Disordered Protein Dynamics as Networks of Transient Secondary Structure

biophysics more details view paper
  • Downloaded 606 times
  • Download rankings, all-time:
    • Site-wide: 13,614 out of 57,553
    • In biophysics: 416 out of 2,437
  • Year to date:
    • Site-wide: 12,096 out of 57,553
  • Since beginning of last month:
    • Site-wide: 10,588 out of 57,553

Dynamical model of the CLC-2 ion channel exhibits a two-step gating mechanism

biophysics more details view paper
  • Downloaded 524 times
  • Download rankings, all-time:
    • Site-wide: 16,513 out of 57,553
    • In biophysics: 551 out of 2,437
  • Year to date:
    • Site-wide: 16,912 out of 57,553
  • Since beginning of last month:
    • Site-wide: 18,452 out of 57,553

Landmark Kernel tICA For Conformational Dynamics

biophysics more details view paper
  • Downloaded 494 times
  • Download rankings, all-time:
    • Site-wide: 17,766 out of 57,553
    • In biophysics: 600 out of 2,437
  • Year to date:
    • Site-wide: 42,607 out of 57,553
  • Since beginning of last month:
    • Site-wide: 47,783 out of 57,553

Millisecond Dynamics Of BTK Reveal Kinome-Wide Conformational Plasticity Within The Apo Kinase Domain

biophysics more details view paper
  • Downloaded 463 times
  • Download rankings, all-time:
    • Site-wide: 19,208 out of 57,553
    • In biophysics: 669 out of 2,437
  • Year to date:
    • Site-wide: 47,319 out of 57,553
  • Since beginning of last month:
    • Site-wide: 42,745 out of 57,553

Markov modeling reveals novel intracellular modulation of the human TREK-2 selectivity filter

biophysics more details view paper
  • Downloaded 451 times
  • Download rankings, all-time:
    • Site-wide: 19,763 out of 57,553
    • In biophysics: 696 out of 2,437
  • Year to date:
    • Site-wide: 49,561 out of 57,553
  • Since beginning of last month:
    • Site-wide: 43,480 out of 57,553

Modeling the Mechanism of CLN025 Beta-Hairpin Formation

biophysics more details view paper
  • Downloaded 439 times
  • Download rankings, all-time:
    • Site-wide: 20,397 out of 57,553
    • In biophysics: 733 out of 2,437
  • Year to date:
    • Site-wide: 49,482 out of 57,553
  • Since beginning of last month:
    • Site-wide: 24,235 out of 57,553

Bayesian analysis of isothermal titration calorimetry for binding thermodynamics

biophysics more details view paper
  • Downloaded 428 times
  • Download rankings, all-time:
    • Site-wide: 21,005 out of 57,553
    • In biophysics: 759 out of 2,437
  • Year to date:
    • Site-wide: 40,621 out of 57,553
  • Since beginning of last month:
    • Site-wide: 24,828 out of 57,553

Application of new informatics tools for identifying allosteric lead ligands of the c-Src kinase

bioinformatics more details view paper
  • Downloaded 390 times
  • Download rankings, all-time:
    • Site-wide: 23,208 out of 57,553
    • In bioinformatics: 3,268 out of 5,869
  • Year to date:
    • Site-wide: 53,741 out of 57,553
  • Since beginning of last month:
    • Site-wide: 54,827 out of 57,553

Computer Simulations Predict High Structural Heterogeneity of Functional State of NMDA Receptors

neuroscience more details view paper
  • Downloaded 290 times
  • Download rankings, all-time:
    • Site-wide: 30,794 out of 57,553
    • In neuroscience: 5,249 out of 10,127
  • Year to date:
    • Site-wide: 49,469 out of 57,553
  • Since beginning of last month:
    • Site-wide: 34,721 out of 57,553

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