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Author: David Baker

Rankings

  • All-time downloads: 109,549 (rank: 1,219 )
  • Categories:
    • allergy and immunology: 180 (rank: 2,928 (tie) )
    • biochemistry: 15,812 (rank: 129 )
    • bioengineering: 5,972 (rank: 173 )
    • bioinformatics: 33,948 (rank: 93 )
    • biophysics: 7,937 (rank: 229 )
    • cell biology: 2,371 (rank: 2,958 (tie) )
    • evolutionary biology: 420 (rank: 17,663 (tie) )
    • genetics: 576 (rank: 25,736 (tie) )
    • genomics: 6,713 (rank: 3,555 (tie) )
    • hiv aids: 288 (rank: 579 (tie) )
    • immunology: 3,818 (rank: 2,988 )
    • infectious diseases: 1,734 (rank: 20,768 (tie) )
    • microbiology: 819 (rank: 21,415 (tie) )
    • molecular biology: 1,085 (rank: 6,404 (tie) )
    • neurology: 6,069 (rank: 168 (tie) )
    • neuroscience: 151 (rank: 86,676 (tie) )
    • physiology: 268 (rank: 8,432 (tie) )
    • public and global health: 591 (rank: 6,860 (tie) )
    • synthetic biology: 20,059 (rank: 23 )
    • systems biology: 738 (rank: 7,012 (tie) )

Downloads per author, site-wide

Preprints

CD19 B cell repopulation after ocrelizumab, alemtuzumab and cladribine: Implications for SARS-CoV-2 vaccinations in multiple sclerosis

neurology more details view paper

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Time-tagged ticker tapes for intracellular recordings

neuroscience more details view paper

No download data for this paper yet.

Improved protein structure prediction using predicted inter-residue orientations

bioinformatics more details view paper
  • Downloaded 15,360 times
  • Download rankings, all-time:
    • Site-wide: 591
    • In bioinformatics: 17
  • Year to date:
    • Site-wide: 794
  • Since beginning of last month:
    • Site-wide: 2,069

Accurate prediction of protein structures and interactions using a 3-track network

bioinformatics more details view paper
  • Downloaded 12,216 times
  • Download rankings, all-time:
    • Site-wide: 800
    • In bioinformatics: 29
  • Year to date:
    • Site-wide: 213
  • Since beginning of last month:
    • Site-wide: 537

Structures of core eukaryotic protein complexes

biochemistry more details view paper
  • Downloaded 6,869 times
  • Download rankings, all-time:
    • Site-wide: 1,668
    • In biochemistry: 21
  • Year to date:
    • Site-wide: 412
  • Since beginning of last month:
    • Site-wide: 51

De novo protein design by deep network hallucination

bioengineering more details view paper
  • Downloaded 5,185 times
  • Download rankings, all-time:
    • Site-wide: 2,441
    • In bioengineering: 19
  • Year to date:
    • Site-wide: 1,148
  • Since beginning of last month:
    • Site-wide: 994

Robust de novo design of protein binding proteins from target structural information alone

synthetic biology more details view paper
  • Downloaded 4,980 times
  • Download rankings, all-time:
    • Site-wide: 2,591
    • In synthetic biology: 22
  • Year to date:
    • Site-wide: 568
  • Since beginning of last month:
    • Site-wide: 76

The ocrelizumab phase II extension trial suggests the potential to improve the risk:benefit balance in multiple sclerosis

neurology more details view paper
  • Downloaded 4,476 times
  • Download rankings, all-time:
    • Site-wide: 2,998
    • In neurology: 9
  • Year to date:
    • Site-wide: 3,568
  • Since beginning of last month:
    • Site-wide: 7,196

A critical comparison of technologies for a plant genome sequencing project

genomics more details view paper
  • Downloaded 4,070 times
  • Download rankings, all-time:
    • Site-wide: 3,420
    • In genomics: 340
  • Year to date:
    • Site-wide: 34,733
  • Since beginning of last month:
    • Site-wide: 79,919

De novo design of picomolar SARS-CoV-2 miniprotein inhibitors

synthetic biology more details view paper
  • Downloaded 3,493 times
  • Download rankings, all-time:
    • Site-wide: 4,219
    • In synthetic biology: 39
  • Year to date:
    • Site-wide: 13,750
  • Since beginning of last month:
    • Site-wide: 24,047

The Rosetta all-atom energy function for macromolecular modeling and design

biophysics more details view paper
  • Downloaded 3,042 times
  • Download rankings, all-time:
    • Site-wide: 5,142
    • In biophysics: 78
  • Year to date:
    • Site-wide: 68,882
  • Since beginning of last month:
    • Site-wide: 47,141

Protein sequence design by explicit energy landscape optimization

biophysics more details view paper
  • Downloaded 2,746 times
  • Download rankings, all-time:
    • Site-wide: 5,977
    • In biophysics: 96
  • Year to date:
    • Site-wide: 5,013
  • Since beginning of last month:
    • Site-wide: 11,595

De novo design of modular and tunable allosteric biosensors

synthetic biology more details view paper
  • Downloaded 2,502 times
  • Download rankings, all-time:
    • Site-wide: 6,856
    • In synthetic biology: 70
  • Year to date:
    • Site-wide: 6,600
  • Since beginning of last month:
    • Site-wide: 18,934

ProteinGCN: Protein model quality assessment using Graph Convolutional Networks

bioinformatics more details view paper
  • Downloaded 2,445 times
  • Download rankings, all-time:
    • Site-wide: 7,086
    • In bioinformatics: 753
  • Year to date:
    • Site-wide: 5,182
  • Since beginning of last month:
    • Site-wide: 13,824

Design of proteins presenting discontinuous functional sites using deep learning

biochemistry more details view paper
  • Downloaded 2,078 times
  • Download rankings, all-time:
    • Site-wide: 8,959
    • In biochemistry: 161
  • Year to date:
    • Site-wide: 3,623
  • Since beginning of last month:
    • Site-wide: 6,249

Single Layers of Attention Suffice to Predict Protein Contacts

bioinformatics more details view paper
  • Downloaded 2,019 times
  • Download rankings, all-time:
    • Site-wide: 9,349
    • In bioinformatics: 1,054
  • Year to date:
    • Site-wide: 2,194
  • Since beginning of last month:
    • Site-wide: 5,940

Designed proteins assemble antibodies into modular nanocages

biochemistry more details view paper
  • Downloaded 1,905 times
  • Download rankings, all-time:
    • Site-wide: 10,176
    • In biochemistry: 195
  • Year to date:
    • Site-wide: 3,830
  • Since beginning of last month:
    • Site-wide: 12,260

High-Throughput Characterization of Protein-Protein Interactions by Reprogramming Yeast Mating

synthetic biology more details view paper
  • Downloaded 1,868 times
  • Download rankings, all-time:
    • Site-wide: 10,482
    • In synthetic biology: 109
  • Year to date:
    • Site-wide: 93,149
  • Since beginning of last month:
    • Site-wide: 61,007

Large-scale design and refinement of stable proteins using sequence-only models

biophysics more details view paper
  • Downloaded 1,702 times
  • Download rankings, all-time:
    • Site-wide: 12,027
    • In biophysics: 264
  • Year to date:
    • Site-wide: 2,107
  • Since beginning of last month:
    • Site-wide: 3,076

Elicitation of broadly protective immunity to influenza by multivalent hemagglutinin nanoparticle vaccines

immunology more details view paper
  • Downloaded 1,670 times
  • Download rankings, all-time:
    • Site-wide: 12,369
    • In immunology: 412
  • Year to date:
    • Site-wide: 8,008
  • Since beginning of last month:
    • Site-wide: 21,767

COVID-19 vaccine response in people with multiple sclerosis

neurology more details view paper
  • Downloaded 1,593 times
  • Download rankings, all-time:
    • Site-wide: 13,229
    • In neurology: 30
  • Year to date:
    • Site-wide: 2,295
  • Since beginning of last month:
    • Site-wide: 805

Tailored Design of Protein Nanoparticle Scaffolds for Multivalent Presentation of Viral Glycoprotein Antigens

synthetic biology more details view paper
  • Downloaded 1,518 times
  • Download rankings, all-time:
    • Site-wide: 14,251
    • In synthetic biology: 159
  • Year to date:
    • Site-wide: 65,860
  • Since beginning of last month:
    • Site-wide: 134,590

Improved protein structure refinement guided by deep learning based accuracy estimation

bioinformatics more details view paper
  • Downloaded 1,435 times
  • Download rankings, all-time:
    • Site-wide: 15,587
    • In bioinformatics: 1,768
  • Year to date:
    • Site-wide: 10,004
  • Since beginning of last month:
    • Site-wide: 25,582

Interpreting Neural Networks for Biological Sequences by Learning Stochastic Masks

genomics more details view paper
  • Downloaded 1,415 times
  • Download rankings, all-time:
    • Site-wide: 15,915
    • In genomics: 1,547
  • Year to date:
    • Site-wide: 2,736
  • Since beginning of last month:
    • Site-wide: 20,886

Direction of actin flow dictates integrin LFA-1 orientation during leukocyte migration

cell biology more details view paper
  • Downloaded 1,377 times
  • Download rankings, all-time:
    • Site-wide: 16,597
    • In cell biology: 494
  • Year to date:
    • Site-wide: 112,840
  • Since beginning of last month:
    • Site-wide: 153,540

Deep learning enables the atomic structure determination of the Fanconi Anemia core complex from cryoEM

biochemistry more details view paper
  • Downloaded 1,307 times
  • Download rankings, all-time:
    • Site-wide: 17,937
    • In biochemistry: 373
  • Year to date:
    • Site-wide: 96,238
  • Since beginning of last month:
    • Site-wide: 103,444

Multivalent designed proteins protect against SARS-CoV-2 variants of concern

synthetic biology more details view paper
  • Downloaded 1,242 times
  • Download rankings, all-time:
    • Site-wide: 19,322
    • In synthetic biology: 231
  • Year to date:
    • Site-wide: 3,282
  • Since beginning of last month:
    • Site-wide: 3,532

A generative algorithm for de novo design of proteins with diverse pocket structures

biochemistry more details view paper
  • Downloaded 1,164 times
  • Download rankings, all-time:
    • Site-wide: 21,281
    • In biochemistry: 453
  • Year to date:
    • Site-wide: 55,942
  • Since beginning of last month:
    • Site-wide: 51,934

Generation of ordered protein assemblies using rigid three-body fusion

synthetic biology more details view paper
  • Downloaded 1,142 times
  • Download rankings, all-time:
    • Site-wide: 21,881
    • In synthetic biology: 276
  • Year to date:
    • Site-wide: 30,590
  • Since beginning of last month:
    • Site-wide: 46,084

Computational design of a protein family that adopts two well-defined and structurally divergent de novo folds

biochemistry more details view paper
  • Downloaded 1,072 times
  • Download rankings, all-time:
    • Site-wide: 24,042
    • In biochemistry: 533
  • Year to date:
    • Site-wide: 110,024
  • Since beginning of last month:
    • Site-wide: 132,629

Actin retrograde flow actively aligns and orients ligand-engaged integrins in focal adhesions.

cell biology more details view paper
  • Downloaded 994 times
  • Download rankings, all-time:
    • Site-wide: 26,953
    • In cell biology: 990
  • Year to date:
    • Site-wide: 152,794
  • Since beginning of last month:
    • Site-wide: 157,819

Design of Biologically Active Binary Protein 2D Materials

synthetic biology more details view paper
  • Downloaded 967 times
  • Download rankings, all-time:
    • Site-wide: 28,034
    • In synthetic biology: 359
  • Year to date:
    • Site-wide: 18,683
  • Since beginning of last month:
    • Site-wide: 42,998

Sentinel cells enable genetic detection of SARS-CoV-2 Spike protein

synthetic biology more details view paper
  • Downloaded 925 times
  • Download rankings, all-time:
    • Site-wide: 29,858
    • In synthetic biology: 384
  • Year to date:
    • Site-wide: 5,054
  • Since beginning of last month:
    • Site-wide: 14,672

Emergence of Resistance to Fluoroquinolones and Third-Generation Cephalosporins in Salmonella Typhi in Lahore, Pakistan

infectious diseases more details view paper
  • Downloaded 902 times
  • Download rankings, all-time:
    • Site-wide: 30,935
    • In infectious diseases: 2,531
  • Year to date:
    • Site-wide: 81,053
  • Since beginning of last month:
    • Site-wide: 75,470

Distinct patterns of SARS-CoV-2 transmission in two nearby communities in Wisconsin, USA

infectious diseases more details view paper
  • Downloaded 832 times
  • Download rankings, all-time:
    • Site-wide: 34,652
    • In infectious diseases: 2,691
  • Year to date:
    • Site-wide: 54,895
  • Since beginning of last month:
    • Site-wide: 48,432

Sampling of Structure and Sequence Space of Small Protein Folds

bioengineering more details view paper
  • Downloaded 787 times
  • Download rankings, all-time:
    • Site-wide: 37,555
    • In bioengineering: 707
  • Year to date:
    • Site-wide: 6,443
  • Since beginning of last month:
    • Site-wide: 12,022

Sequencing smart: De novo sequencing and assembly approaches for non-model mammals.

genomics more details view paper
  • Downloaded 785 times
  • Download rankings, all-time:
    • Site-wide: 37,721
    • In genomics: 3,103
  • Year to date:
    • Site-wide: 98,794
  • Since beginning of last month:
    • Site-wide: 114,283

De novo design of transmembrane beta-barrels

synthetic biology more details view paper
  • Downloaded 767 times
  • Download rankings, all-time:
    • Site-wide: 38,962
    • In synthetic biology: 489
  • Year to date:
    • Site-wide: 19,560
  • Since beginning of last month:
    • Site-wide: 37,920

Structural and functional evaluation of de novo-designed, two-component nanoparticle carriers for HIV Env trimer immunogens

immunology more details view paper
  • Downloaded 751 times
  • Download rankings, all-time:
    • Site-wide: 40,150
    • In immunology: 1,291
  • Year to date:
    • Site-wide: 87,923
  • Since beginning of last month:
    • Site-wide: 111,670

Self-assembly based post-translational protein oscillators

systems biology more details view paper
  • Downloaded 738 times
  • Download rankings, all-time:
    • Site-wide: 41,122
    • In systems biology: 883
  • Year to date:
    • Site-wide: 98,548
  • Since beginning of last month:
    • Site-wide: 129,403

Targeting HIV Env immunogens to B cell follicles in non-human primates through immune complex or protein nanoparticle formulations

immunology more details view paper
  • Downloaded 701 times
  • Download rankings, all-time:
    • Site-wide: 44,073
    • In immunology: 1,400
  • Year to date:
    • Site-wide: 123,083
  • Since beginning of last month:
    • Site-wide: 134,964

Polyclonal antibody responses to HIV Env immunogens resolved using cryoEM

immunology more details view paper
  • Downloaded 696 times
  • Download rankings, all-time:
    • Site-wide: 44,523
    • In immunology: 1,413
  • Year to date:
    • Site-wide: 7,726
  • Since beginning of last month:
    • Site-wide: 5,757

Genomic epidemiology of the SARS-CoV-2 epidemic in Zimbabwe: Role of international travel and regional migration in spread

public and global health more details view paper
  • Downloaded 591 times
  • Download rankings, all-time:
    • Site-wide: 55,074
    • In public and global health: 850
  • Year to date:
    • Site-wide: 9,903
  • Since beginning of last month:
    • Site-wide: 29,812

Antibody responses to Zika virus protein in pregnant and non-pregnant macaques

microbiology more details view paper
  • Downloaded 589 times
  • Download rankings, all-time:
    • Site-wide: 55,338
    • In microbiology: 3,457
  • Year to date:
    • Site-wide: 148,109
  • Since beginning of last month:
    • Site-wide: 159,399

Summary-data-based mendelian randomisation reveals druggable targets for multiple sclerosis

genetics more details view paper
  • Downloaded 576 times
  • Download rankings, all-time:
    • Site-wide: 56,965
    • In genetics: 2,450
  • Year to date:
    • Site-wide: 65,626
  • Since beginning of last month:
    • Site-wide: 45,136

Hierarchical design of multi-scale protein complexes by combinatorial assembly of oligomeric helical bundle and repeat protein building blocks

biochemistry more details view paper
  • Downloaded 569 times
  • Download rankings, all-time:
    • Site-wide: 57,773
    • In biochemistry: 1,521
  • Year to date:
    • Site-wide: 29,904
  • Since beginning of last month:
    • Site-wide: 77,369

Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks

bioinformatics more details view paper
  • Downloaded 473 times
  • Download rankings, all-time:
    • Site-wide: 71,593
    • In bioinformatics: 6,730
  • Year to date:
    • Site-wide: 13,774
  • Since beginning of last month:
    • Site-wide: 13,615

F-domain valency determines outcome of signaling through the angiopoietin pathway

biochemistry more details view paper
  • Downloaded 472 times
  • Download rankings, all-time:
    • Site-wide: 71,651
    • In biochemistry: 1,949
  • Year to date:
    • Site-wide: 24,022
  • Since beginning of last month:
    • Site-wide: 27,357

Learning a force field from small-molecule crystal lattice predictions enables consistent sub-Angstrom protein-ligand docking

biophysics more details view paper
  • Downloaded 447 times
  • Download rankings, all-time:
    • Site-wide: 75,951
    • In biophysics: 2,743
  • Year to date:
    • Site-wide: 73,006
  • Since beginning of last month:
    • Site-wide: 70,358

Genomic diversity of Escherichia coli isolates from non-human primates in the Gambia

genomics more details view paper
  • Downloaded 443 times
  • Download rankings, all-time:
    • Site-wide: 76,550
    • In genomics: 5,129
  • Year to date:
    • Site-wide: 106,541
  • Since beginning of last month:
    • Site-wide: 135,112

The genomes of invasive coral Tubastraea spp. (Dendrophylliidae) as tool for the development of biotechnological solutions

evolutionary biology more details view paper
  • Downloaded 420 times
  • Download rankings, all-time:
    • Site-wide: 80,920
    • In evolutionary biology: 4,121
  • Year to date:
    • Site-wide: 47,632
  • Since beginning of last month:
    • Site-wide: 35,883

The stability landscape of de novo TIM barrels explored by a modular design approach

biochemistry more details view paper
  • Downloaded 376 times
  • Download rankings, all-time:
    • Site-wide: 89,676
    • In biochemistry: 2,552
  • Year to date:
    • Site-wide: 30,789
  • Since beginning of last month:
    • Site-wide: 21,221

Reconfigurable asymmetric protein assemblies through implicit negative design

synthetic biology more details view paper
  • Downloaded 367 times
  • Download rankings, all-time:
    • Site-wide: 91,615
    • In synthetic biology: 988
  • Year to date:
    • Site-wide: 20,120
  • Since beginning of last month:
    • Site-wide: 9,369

Computer Designed PRC2 Inhibitor, EBdCas9, Reveals Functional TATA boxes in Distal Promoter Regions

molecular biology more details view paper
  • Downloaded 365 times
  • Download rankings, all-time:
    • Site-wide: 92,015
    • In molecular biology: 2,727
  • Year to date:
    • Site-wide: 43,994
  • Since beginning of last month:
    • Site-wide: 66,497

Detection of antibodies neutralizing historical and emerging SARS-CoV-2 strains using a thermodynamically coupled de novo biosensor system

molecular biology more details view paper
  • Downloaded 362 times
  • Download rankings, all-time:
    • Site-wide: 92,891
    • In molecular biology: 2,747
  • Year to date:
    • Site-wide: 20,558
  • Since beginning of last month:
    • Site-wide: 30,813

Protein sequence optimization with a pairwise decomposable penalty for buried unsatisfied hydrogen bonds

molecular biology more details view paper
  • Downloaded 358 times
  • Download rankings, all-time:
    • Site-wide: 93,692
    • In molecular biology: 2,769
  • Year to date:
    • Site-wide: 96,171
  • Since beginning of last month:
    • Site-wide: 87,692

Age-related clonal haematopoiesis is more prevalent in older adults with HIV: the ARCHIVE study

hiv aids more details view paper
  • Downloaded 288 times
  • Download rankings, all-time:
    • Site-wide: 110,569
    • In hiv aids: 64
  • Year to date:
    • Site-wide: 72,994
  • Since beginning of last month:
    • Site-wide: 128,819

Natural and designed proteins inspired by extremotolerant organisms can form condensates and attenuate apoptosis in human cells

synthetic biology more details view paper
  • Downloaded 288 times
  • Download rankings, all-time:
    • Site-wide: 110,472
    • In synthetic biology: 1,077
  • Year to date:
    • Site-wide: 28,380
  • Since beginning of last month:
    • Site-wide: 2,194

Relaxin/insulin-like family peptide receptor 4 (Rxfp4) expressing hypothalamic neurons modulate food intake and preference in mice

physiology more details view paper
  • Downloaded 268 times
  • Download rankings, all-time:
    • Site-wide: 115,630
    • In physiology: 1,126
  • Year to date:
    • Site-wide: 31,228
  • Since beginning of last month:
    • Site-wide: 19,670

A covariation analysis reveals elements of selectivity in quorum sensing systems

microbiology more details view paper
  • Downloaded 230 times
  • Download rankings, all-time:
    • Site-wide: 125,818
    • In microbiology: 9,204
  • Year to date:
    • Site-wide: 37,879
  • Since beginning of last month:
    • Site-wide: 91,148

Antigen-specific tolerization in human autoimmunity: Inhibition of interferon-beta1a anti-drug antibodies in multiple sclerosis

allergy and immunology more details view paper
  • Downloaded 180 times
  • Download rankings, all-time:
    • Site-wide: 138,244
    • In allergy and immunology: 209
  • Year to date:
    • Site-wide: 50,575
  • Since beginning of last month:
    • Site-wide: 78,354

The role of complex IV activity in the axonal response of mitochondria to demyelination in experimental disease models of multiple sclerosis

neuroscience more details view paper
  • Downloaded 151 times
  • Download rankings, all-time:
    • Site-wide: 144,815
    • In neuroscience: 21,606
  • Year to date:
    • Site-wide: 60,845
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    • Site-wide: 6,312

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