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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 67,466 bioRxiv papers from 297,269 authors.

Author: Vijay S Pande

Rankings

  • All-time downloads: 12,275 (rank: 3,198 out of 297,269)
  • Categories:
    • bioinformatics: 1,764 (rank: 4,525 (tie) out of 25,887)
    • biophysics: 10,184 (rank: 39 out of 11,761)
    • neuroscience: 327 (rank: 29,467 (tie) out of 49,692)

Downloads per author, site-wide

Preprints

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

bioinformatics more details view paper
  • Downloaded 1,359 times
  • Download rankings, all-time:
    • Site-wide: 4,705 out of 67,466
    • In bioinformatics: 908 out of 6,645
  • Year to date:
    • Site-wide: 46,619 out of 67,466
  • Since beginning of last month:
    • Site-wide: 46,190 out of 67,466

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

biophysics more details view paper
  • Downloaded 1,257 times
  • Download rankings, all-time:
    • Site-wide: 5,339 out of 67,466
    • In biophysics: 149 out of 2,861
  • Year to date:
    • Site-wide: 32,166 out of 67,466
  • Since beginning of last month:
    • Site-wide: 25,820 out of 67,466

MSMBuilder: Statistical Models for Biomolecular Dynamics

biophysics more details view paper
  • Downloaded 1,110 times
  • Download rankings, all-time:
    • Site-wide: 6,598 out of 67,466
    • In biophysics: 192 out of 2,861
  • Year to date:
    • Site-wide: 24,172 out of 67,466
  • Since beginning of last month:
    • Site-wide: 37,646 out of 67,466

Energy Conservation as a Measure of Simulation Accuracy

biophysics more details view paper
  • Downloaded 1,093 times
  • Download rankings, all-time:
    • Site-wide: 6,756 out of 67,466
    • In biophysics: 197 out of 2,861
  • Year to date:
    • Site-wide: 8,486 out of 67,466
  • Since beginning of last month:
    • Site-wide: 14,291 out of 67,466

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

biophysics more details view paper
  • Downloaded 1,026 times
  • Download rankings, all-time:
    • Site-wide: 7,460 out of 67,466
    • In biophysics: 220 out of 2,861
  • Year to date:
    • Site-wide: 24,570 out of 67,466
  • Since beginning of last month:
    • Site-wide: 20,909 out of 67,466

Bayesian Energy Landscape Tilting: Towards Concordant Models of Molecular Ensembles

biophysics more details view paper
  • Downloaded 820 times
  • Download rankings, all-time:
    • Site-wide: 10,676 out of 67,466
    • In biophysics: 326 out of 2,861
  • Year to date:
    • Site-wide: 59,187 out of 67,466
  • Since beginning of last month:
    • Site-wide: 50,386 out of 67,466

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

biophysics more details view paper
  • Downloaded 787 times
  • Download rankings, all-time:
    • Site-wide: 11,369 out of 67,466
    • In biophysics: 350 out of 2,861
  • Year to date:
    • Site-wide: 41,610 out of 67,466
  • Since beginning of last month:
    • Site-wide: 60,990 out of 67,466

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

biophysics more details view paper
  • Downloaded 731 times
  • Download rankings, all-time:
    • Site-wide: 12,665 out of 67,466
    • In biophysics: 395 out of 2,861
  • Year to date:
    • Site-wide: 26,090 out of 67,466
  • Since beginning of last month:
    • Site-wide: 25,406 out of 67,466

Modelling Intrinsically Disordered Protein Dynamics as Networks of Transient Secondary Structure

biophysics more details view paper
  • Downloaded 688 times
  • Download rankings, all-time:
    • Site-wide: 13,788 out of 67,466
    • In biophysics: 443 out of 2,861
  • Year to date:
    • Site-wide: 13,815 out of 67,466
  • Since beginning of last month:
    • Site-wide: 11,855 out of 67,466

Landmark Kernel tICA For Conformational Dynamics

biophysics more details view paper
  • Downloaded 526 times
  • Download rankings, all-time:
    • Site-wide: 19,960 out of 67,466
    • In biophysics: 708 out of 2,861
  • Year to date:
    • Site-wide: 49,101 out of 67,466
  • Since beginning of last month:
    • Site-wide: 36,172 out of 67,466

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

biophysics more details view paper
  • Downloaded 486 times
  • Download rankings, all-time:
    • Site-wide: 21,971 out of 67,466
    • In biophysics: 803 out of 2,861
  • Year to date:
    • Site-wide: 56,391 out of 67,466
  • Since beginning of last month:
    • Site-wide: 50,855 out of 67,466

Bayesian analysis of isothermal titration calorimetry for binding thermodynamics

biophysics more details view paper
  • Downloaded 471 times
  • Download rankings, all-time:
    • Site-wide: 22,894 out of 67,466
    • In biophysics: 847 out of 2,861
  • Year to date:
    • Site-wide: 43,894 out of 67,466
  • Since beginning of last month:
    • Site-wide: 33,764 out of 67,466

Modeling the Mechanism of CLN025 Beta-Hairpin Formation

biophysics more details view paper
  • Downloaded 469 times
  • Download rankings, all-time:
    • Site-wide: 22,999 out of 67,466
    • In biophysics: 851 out of 2,861
  • Year to date:
    • Site-wide: 56,225 out of 67,466
  • Since beginning of last month:
    • Site-wide: 45,400 out of 67,466

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

biophysics more details view paper
  • Downloaded 468 times
  • Download rankings, all-time:
    • Site-wide: 23,055 out of 67,466
    • In biophysics: 854 out of 2,861
  • Year to date:
    • Site-wide: 60,404 out of 67,466
  • Since beginning of last month:
    • Site-wide: 59,958 out of 67,466

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

bioinformatics more details view paper
  • Downloaded 405 times
  • Download rankings, all-time:
    • Site-wide: 27,202 out of 67,466
    • In bioinformatics: 3,649 out of 6,645
  • Year to date:
    • Site-wide: 64,157 out of 67,466
  • Since beginning of last month:
    • Site-wide: 62,814 out of 67,466

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

neuroscience more details view paper
  • Downloaded 327 times
  • Download rankings, all-time:
    • Site-wide: 33,764 out of 67,466
    • In neuroscience: 5,859 out of 12,091
  • Year to date:
    • Site-wide: 53,217 out of 67,466
  • Since beginning of last month:
    • Site-wide: 33,463 out of 67,466

Dynamical model of the CLC-2 ion channel reveals conformational changes associated with selectivity-filter gating

biophysics more details view paper
  • Downloaded 252 times
  • Download rankings, all-time:
    • Site-wide: 41,922 out of 67,466
    • In biophysics: 1,748 out of 2,861
  • Year to date:
    • Site-wide: None out of 67,466
  • Since beginning of last month:
    • Site-wide: None out of 67,466

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