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Author: James S. Fraser

Rankings

  • All-time downloads: 224,326 (rank: 454 )
  • Categories:
    • biochemistry: 8,729 (rank: 334 )
    • bioengineering: 1,915 (rank: 2,272 (tie) )
    • bioinformatics: 638 (rank: 27,261 (tie) )
    • biophysics: 24,631 (rank: 28 )
    • cancer biology: 1,455 (rank: 7,435 (tie) )
    • immunology: 480 (rank: 27,433 (tie) )
    • synthetic biology: 3,840 (rank: 437 (tie) )
    • systems biology: 179,786 (rank: 15 )

Downloads per author, site-wide

Preprints

A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing

systems biology more details view paper
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    • Site-wide: 31
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    • Site-wide: 774

Deep neural language modeling enables functional protein generation across families

synthetic biology more details view paper
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    • Site-wide: 3,605
    • In synthetic biology: 37
  • Year to date:
    • Site-wide: 1,075
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    • Site-wide: 788

CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.

biophysics more details view paper
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    • In biophysics: 89
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A multi-model approach to assessing local and global cryo-EM map quality

biophysics more details view paper
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    • Site-wide: 10,638
    • In biophysics: 197
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Mapping the Conformational Landscape of a Dynamic Enzyme by XFEL and Multitemperature Crystallography

biophysics more details view paper
  • Downloaded 1,834 times
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    • Site-wide: 13,116
    • In biophysics: 275
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    • Site-wide: 119,565

Fragment binding to the Nsp3 macrodomain of SARS-CoV-2 identified through crystallographic screening and computational docking

biochemistry more details view paper
  • Downloaded 1,821 times
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    • Site-wide: 13,254
    • In biochemistry: 266
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Co-occurring alterations in the RAS-MAPK pathway limit response to MET inhibitor treatment in MET exon 14 skipping mutation positive lung cancer

cancer biology more details view paper
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    • Site-wide: 18,298
    • In cancer biology: 378
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Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta

biochemistry more details view paper
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    • Site-wide: 22,357
    • In biochemistry: 456
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Computational design of a modular protein sense/response system

biophysics more details view paper
  • Downloaded 1,238 times
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    • Site-wide: 23,897
    • In biophysics: 581
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qFit-ligand reveals widespread conformational heterogeneity of drug-like molecules in X-ray electron density maps

biophysics more details view paper
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    • Site-wide: 24,056
    • In biophysics: 594
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Mix-and-inject XFEL crystallography reveals gated conformational dynamics during enzyme catalysis

biochemistry more details view paper
  • Downloaded 1,208 times
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    • Site-wide: 24,803
    • In biochemistry: 535
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Temperature-Jump Solution X-ray Scattering Reveals Distinct Motions in a Dynamic Enzyme

biophysics more details view paper
  • Downloaded 1,206 times
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    • Site-wide: 24,855
    • In biophysics: 620
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    • Site-wide: 105,547
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Effects of α-tubulin acetylation on microtubule structure and stability

biophysics more details view paper
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    • Site-wide: 26,676
    • In biophysics: 686
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    • Site-wide: 118,721
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High-resolution cryo-electron microscopy structure of the Escherichia coli 50S subunit and validation of nucleotide modifications

biochemistry more details view paper
  • Downloaded 1,136 times
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    • Site-wide: 27,247
    • In biochemistry: 605
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    • Site-wide: 56,409
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Measuring and modeling diffuse scattering in protein X-ray crystallography

biophysics more details view paper
  • Downloaded 1,119 times
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    • Site-wide: 27,893
    • In biophysics: 726
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    • Site-wide: 156,496
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    • Site-wide: 119,023

Comparing serial X-ray crystallography and microcrystal electron diffraction (MicroED) as methods for routine structure determination from small macromolecular crystals

biophysics more details view paper
  • Downloaded 1,092 times
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    • Site-wide: 28,913
    • In biophysics: 771
  • Year to date:
    • Site-wide: 135,905
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    • Site-wide: 109,258

Side-chain-directed model and map validation for 3D Electron Cryomicroscopy

biophysics more details view paper
  • Downloaded 1,056 times
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    • Site-wide: 30,342
    • In biophysics: 831
  • Year to date:
    • Site-wide: 120,176
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    • Site-wide: 68,625

Expanding the space of protein geometries by computational design of de novo fold families

bioengineering more details view paper
  • Downloaded 1,042 times
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    • Site-wide: 30,918
    • In bioengineering: 528
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    • Site-wide: 146,085
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Outcomes of the 2019 EMDataResource model challenge: validation of cryo-EM models at near-atomic resolution

biochemistry more details view paper
  • Downloaded 988 times
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    • Site-wide: 33,501
    • In biochemistry: 770
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Accurately positioning functional residues with robotics-inspired computational protein design

bioengineering more details view paper
  • Downloaded 962 times
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    • Site-wide: 34,886
    • In bioengineering: 702
  • Year to date:
    • Site-wide: 23,233
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New routes for PTP1B allosteric inhibition by multitemperature crystallography, fragment screening and covalent tethering

biophysics more details view paper
  • Downloaded 959 times
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    • Site-wide: 35,049
    • In biophysics: 1,027
  • Year to date:
    • Site-wide: 60,442
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Determination of Ubiquitin Fitness Landscapes Under Different Chemical Stresses in a Classroom Setting

systems biology more details view paper
  • Downloaded 955 times
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    • Site-wide: 35,221
    • In systems biology: 659
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    • Site-wide: 131,657
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    • Site-wide: 149,639

Evolution of an enzyme conformational ensemble guides design of an efficient biocatalyst

biophysics more details view paper
  • Downloaded 829 times
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    • Site-wide: 43,387
    • In biophysics: 1,335
  • Year to date:
    • Site-wide: 95,025
  • Since beginning of last month:
    • Site-wide: 52,795

Exposing hidden alternative backbone conformations in X-ray crystallography using qFit

biophysics more details view paper
  • Downloaded 822 times
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    • Site-wide: 43,910
    • In biophysics: 1,301
  • Year to date:
    • Site-wide: 154,996
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    • Site-wide: 163,303

Assessment of enzyme active site positioning and tests of catalytic mechanisms through X-ray-derived conformational ensembles

biophysics more details view paper
  • Downloaded 806 times
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    • Site-wide: 45,178
    • In biophysics: 1,341
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    • Site-wide: 161,946
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Predicting X-ray Diffuse Scattering from Translation Libration Screw Structural Ensembles

biophysics more details view paper
  • Downloaded 800 times
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    • Site-wide: 45,636
    • In biophysics: 1,375
  • Year to date:
    • Site-wide: 169,324
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    • Site-wide: 131,986

Flexibility and design: conformational heterogeneity along the evolutionary trajectory of a redesigned ubiquitin

biophysics more details view paper
  • Downloaded 788 times
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    • Site-wide: 46,657
    • In biophysics: 1,435
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    • Site-wide: 143,105
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    • Site-wide: 108,194

Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance

biochemistry more details view paper
  • Downloaded 786 times
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    • Site-wide: 46,861
    • In biochemistry: 1,220
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    • Site-wide: 40,565
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Bringing Diffuse X-ray Scattering Into Focus

biophysics more details view paper
  • Downloaded 734 times
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    • Site-wide: 51,606
    • In biophysics: 1,610
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    • Site-wide: 137,184
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Rescue of Conformational Dynamics in Enzyme Catalysis by Directed Evolution

biophysics more details view paper
  • Downloaded 723 times
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    • Site-wide: 52,789
    • In biophysics: 1,631
  • Year to date:
    • Site-wide: 156,732
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A counter-enzyme complex regulates glutamate metabolism in Bacillus subtilis

biochemistry more details view paper
  • Downloaded 721 times
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    • Site-wide: 52,937
    • In biochemistry: 1,427
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    • Site-wide: 34,359
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Model selection for biological crystallography

biophysics more details view paper
  • Downloaded 711 times
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    • Site-wide: 54,035
    • In biophysics: 1,704
  • Year to date:
    • Site-wide: 132,296
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Structural basis for context-specific inhibition of translation by oxazolidinone antibiotics

biophysics more details view paper
  • Downloaded 701 times
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    • Site-wide: 55,098
    • In biophysics: 1,826
  • Year to date:
    • Site-wide: 12,129
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    • Site-wide: 51,415

Ligand binding remodels protein side chain conformational heterogeneity

biophysics more details view paper
  • Downloaded 661 times
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    • Site-wide: 59,783
    • In biophysics: 2,112
  • Year to date:
    • Site-wide: 30,068
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Extending Chemical Perturbations Of The Ubiquitin Fitness Landscape In A Classroom Setting

bioinformatics more details view paper
  • Downloaded 645 times
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    • Site-wide: 61,680
    • In bioinformatics: 5,725
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Differences in the chitinolytic activity of mammalian chitinases on soluble and crystalline substrates

biochemistry more details view paper
  • Downloaded 562 times
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    • Site-wide: 73,383
    • In biochemistry: 1,923
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    • Site-wide: 88,096
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qFit 3: Protein and ligand multiconformer modeling for X-ray crystallographic and single-particle cryo-EM density maps

biophysics more details view paper
  • Downloaded 543 times
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    • Site-wide: 76,487
    • In biophysics: 2,872
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    • Site-wide: 54,863
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    • Site-wide: 37,711

Type 2 innate immunity regulates hair follicle homeostasis to control Demodex pathosymbionts

immunology more details view paper
  • Downloaded 505 times
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    • Site-wide: 83,376
    • In immunology: 2,565
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The mechanisms of catalysis and ligand binding for the SARS-CoV-2 NSP3 macrodomain from neutron and X-ray diffraction at room temperature

biochemistry more details view paper
  • Downloaded 485 times
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    • Site-wide: 87,324
    • In biochemistry: 3,243
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From deep TLS validation to ensembles of atomic models built from elemental motions

biophysics more details view paper
  • Downloaded 460 times
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    • Site-wide: 92,357
    • In biophysics: 3,176
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    • Site-wide: 169,325
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Liquid-like and rigid-body motions in molecular-dynamics simulations of a crystalline protein

biophysics more details view paper
  • Downloaded 361 times
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    • Site-wide: 116,289
    • In biophysics: 4,306
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Molecular-Dynamics Simulation Methods for Macromolecular Crystallography

biophysics more details view paper
  • Downloaded 273 times
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    • Site-wide: 141,376
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Ensemble-function relationships to evaluate catalysis in the ketosteroid isomerase oxyanion hole

biochemistry more details view paper
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    • Site-wide: 177,406
    • In biochemistry: 5,299
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