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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 57,524 bioRxiv papers from 264,866 authors.

Author: Richard Bonneau

Rankings

  • All-time downloads: 34,155 (rank: 434 out of 264,866)
  • Categories:
    • bioengineering: 275 (rank: 3,675 (tie) out of 6,159)
    • bioinformatics: 8,520 (rank: 359 out of 23,134)
    • biophysics: 4,057 (rank: 135 out of 9,880)
    • ecology: 726 (rank: 1,959 (tie) out of 10,052)
    • genomics: 8,675 (rank: 1,122 out of 30,302)
    • immunology: 2,655 (rank: 236 out of 11,231)
    • microbiology: 958 (rank: 3,143 (tie) out of 26,266)
    • neuroscience: 1,929 (rank: 4,165 (tie) out of 41,418)
    • systems biology: 6,360 (rank: 47 out of 7,827)

Downloads per author, site-wide

Preprints

High-density spatial transcriptomics arrays for in situ tissue profiling

genomics more details view paper
  • Downloaded 3,870 times
  • Download rankings, all-time:
    • Site-wide: 613 out of 57,524
    • In genomics: 167 out of 4,030
  • Year to date:
    • Site-wide: 74 out of 57,524
  • Since beginning of last month:
    • Site-wide: 198 out of 57,524

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

biophysics more details view paper
  • Downloaded 2,668 times
  • Download rankings, all-time:
    • Site-wide: 1,234 out of 57,524
    • In biophysics: 26 out of 2,432
  • Year to date:
    • Site-wide: 14,161 out of 57,524
  • Since beginning of last month:
    • Site-wide: 13,524 out of 57,524

Environmental gene regulatory influence networks in rice (Oryza sativa): response to water deficit, high temperature and agricultural environments

systems biology more details view paper
  • Downloaded 2,282 times
  • Download rankings, all-time:
    • Site-wide: 1,632 out of 57,524
    • In systems biology: 37 out of 1,638
  • Year to date:
    • Site-wide: 13,221 out of 57,524
  • Since beginning of last month:
    • Site-wide: 14,699 out of 57,524

Spatiotemporal Dynamics of Molecular Pathology in Amyotrophic Lateral Sclerosis

neuroscience more details view paper
  • Downloaded 1,929 times
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    • Site-wide: 2,180 out of 57,524
    • In neuroscience: 311 out of 10,117
  • Year to date:
    • Site-wide: 1,039 out of 57,524
  • Since beginning of last month:
    • Site-wide: 3,429 out of 57,524

Gene regulatory network reconstruction using single-cell RNA sequencing of barcoded genotypes in diverse environments

genomics more details view paper
  • Downloaded 1,729 times
  • Download rankings, all-time:
    • Site-wide: 2,635 out of 57,524
    • In genomics: 537 out of 4,030
  • Year to date:
    • Site-wide: 365 out of 57,524
  • Since beginning of last month:
    • Site-wide: 668 out of 57,524

The impact of endogenous retroviruses on nuclear organization and gene expression

genomics more details view paper
  • Downloaded 1,718 times
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    • Site-wide: 2,660 out of 57,524
    • In genomics: 541 out of 4,030
  • Year to date:
    • Site-wide: 11,615 out of 57,524
  • Since beginning of last month:
    • Site-wide: 15,996 out of 57,524

deepNF: Deep network fusion for protein function prediction

systems biology more details view paper
  • Downloaded 1,663 times
  • Download rankings, all-time:
    • Site-wide: 2,818 out of 57,524
    • In systems biology: 69 out of 1,638
  • Year to date:
    • Site-wide: 16,212 out of 57,524
  • Since beginning of last month:
    • Site-wide: 24,216 out of 57,524

Normalization methods for microbial abundance data strongly affect correlation estimates

bioinformatics more details view paper
  • Downloaded 1,498 times
  • Download rankings, all-time:
    • Site-wide: 3,324 out of 57,524
    • In bioinformatics: 674 out of 5,864
  • Year to date:
    • Site-wide: 1,043 out of 57,524
  • Since beginning of last month:
    • Site-wide: 748 out of 57,524

c-Maf-dependent regulatory T cells mediate immunological tolerance to intestinal microbiota

immunology more details view paper
  • Downloaded 1,415 times
  • Download rankings, all-time:
    • Site-wide: 3,678 out of 57,524
    • In immunology: 42 out of 1,373
  • Year to date:
    • Site-wide: 15,244 out of 57,524
  • Since beginning of last month:
    • Site-wide: 18,615 out of 57,524

Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells

systems biology more details view paper
  • Downloaded 1,379 times
  • Download rankings, all-time:
    • Site-wide: 3,838 out of 57,524
    • In systems biology: 94 out of 1,638
  • Year to date:
    • Site-wide: 6,629 out of 57,524
  • Since beginning of last month:
    • Site-wide: 10,260 out of 57,524

Robust Classification of Protein Variation Using Structural Modeling and Large-Scale Data Integration

bioinformatics more details view paper
  • Downloaded 1,323 times
  • Download rankings, all-time:
    • Site-wide: 4,101 out of 57,524
    • In bioinformatics: 816 out of 5,864
  • Year to date:
    • Site-wide: 14,797 out of 57,524
  • Since beginning of last month:
    • Site-wide: 14,730 out of 57,524

Characterizing the epigenetic landscape of cellular populations from bulk and single-cell ATAC-seq information.

bioinformatics more details view paper
  • Downloaded 1,239 times
  • Download rankings, all-time:
    • Site-wide: 4,568 out of 57,524
    • In bioinformatics: 910 out of 5,864
  • Year to date:
    • Site-wide: 703 out of 57,524
  • Since beginning of last month:
    • Site-wide: 1,123 out of 57,524

Fused regression for multi-source gene regulatory network inference

bioinformatics more details view paper
  • Downloaded 977 times
  • Download rankings, all-time:
    • Site-wide: 6,735 out of 57,524
    • In bioinformatics: 1,230 out of 5,864
  • Year to date:
    • Site-wide: 30,777 out of 57,524
  • Since beginning of last month:
    • Site-wide: 29,044 out of 57,524

The Prevotella copri complex comprises four distinct clades that are underrepresented in Westernised populations

microbiology more details view paper
  • Downloaded 958 times
  • Download rankings, all-time:
    • Site-wide: 6,941 out of 57,524
    • In microbiology: 282 out of 4,583
  • Year to date:
    • Site-wide: 1,157 out of 57,524
  • Since beginning of last month:
    • Site-wide: 2,360 out of 57,524

Mocap: Large-scale inference of transcription factor binding sites from chromatin accessibility

bioinformatics more details view paper
  • Downloaded 921 times
  • Download rankings, all-time:
    • Site-wide: 7,398 out of 57,524
    • In bioinformatics: 1,337 out of 5,864
  • Year to date:
    • Site-wide: 48,646 out of 57,524
  • Since beginning of last month:
    • Site-wide: 49,634 out of 57,524

Transcriptional regulatory networks that promote and restrict identities and functions of intestinal innate lymphoid cells

immunology more details view paper
  • Downloaded 910 times
  • Download rankings, all-time:
    • Site-wide: 7,537 out of 57,524
    • In immunology: 105 out of 1,373
  • Year to date:
    • Site-wide: 2,343 out of 57,524
  • Since beginning of last month:
    • Site-wide: 2,228 out of 57,524

Multi-study inference of regulatory networks for more accurate models of gene regulation

systems biology more details view paper
  • Downloaded 893 times
  • Download rankings, all-time:
    • Site-wide: 7,742 out of 57,524
    • In systems biology: 218 out of 1,638
  • Year to date:
    • Site-wide: 13,538 out of 57,524
  • Since beginning of last month:
    • Site-wide: 28,748 out of 57,524

Biophysically motivated regulatory network inference: progress and prospects

bioinformatics more details view paper
  • Downloaded 815 times
  • Download rankings, all-time:
    • Site-wide: 8,948 out of 57,524
    • In bioinformatics: 1,586 out of 5,864
  • Year to date:
    • Site-wide: 52,762 out of 57,524
  • Since beginning of last month:
    • Site-wide: 52,344 out of 57,524

Rotamer libraries for the high-resolution design of beta-amino acid foldamers

bioinformatics more details view paper
  • Downloaded 736 times
  • Download rankings, all-time:
    • Site-wide: 10,392 out of 57,524
    • In bioinformatics: 1,783 out of 5,864
  • Year to date:
    • Site-wide: 21,940 out of 57,524
  • Since beginning of last month:
    • Site-wide: 25,276 out of 57,524

Temporal probabilistic modeling of bacterial compositions derived from 16S rRNA sequencing

ecology more details view paper
  • Downloaded 726 times
  • Download rankings, all-time:
    • Site-wide: 10,596 out of 57,524
    • In ecology: 267 out of 2,424
  • Year to date:
    • Site-wide: 37,000 out of 57,524
  • Since beginning of last month:
    • Site-wide: 37,414 out of 57,524

NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains

genomics more details view paper
  • Downloaded 695 times
  • Download rankings, all-time:
    • Site-wide: 11,253 out of 57,524
    • In genomics: 1,586 out of 4,030
  • Year to date:
    • Site-wide: 2,025 out of 57,524
  • Since beginning of last month:
    • Site-wide: 7,932 out of 57,524

4C-ker: A method to reproducibly identify genome-wide interactions captured by 4C-Seq experiments

bioinformatics more details view paper
  • Downloaded 673 times
  • Download rankings, all-time:
    • Site-wide: 11,792 out of 57,524
    • In bioinformatics: 1,981 out of 5,864
  • Year to date:
    • Site-wide: 44,565 out of 57,524
  • Since beginning of last month:
    • Site-wide: 24,173 out of 57,524

The interdependent nature of multi-loci associations can be revealed by 4C-Seq

genomics more details view paper
  • Downloaded 663 times
  • Download rankings, all-time:
    • Site-wide: 12,060 out of 57,524
    • In genomics: 1,672 out of 4,030
  • Year to date:
    • Site-wide: 49,878 out of 57,524
  • Since beginning of last month:
    • Site-wide: 44,428 out of 57,524

Explicit Modeling of RNA Stability Improves Large-Scale Inference of Transcription Regulation

biophysics more details view paper
  • Downloaded 607 times
  • Download rankings, all-time:
    • Site-wide: 13,569 out of 57,524
    • In biophysics: 415 out of 2,432
  • Year to date:
    • Site-wide: 34,144 out of 57,524
  • Since beginning of last month:
    • Site-wide: 52,150 out of 57,524

Computing structure-based lipid accessibility of membrane proteins with mp_lipid_acc in RosettaMP

biophysics more details view paper
  • Downloaded 442 times
  • Download rankings, all-time:
    • Site-wide: 20,257 out of 57,524
    • In biophysics: 722 out of 2,432
  • Year to date:
    • Site-wide: 54,161 out of 57,524
  • Since beginning of last month:
    • Site-wide: 55,899 out of 57,524

Towards region-specific propagation of protein functions

bioinformatics more details view paper
  • Downloaded 338 times
  • Download rankings, all-time:
    • Site-wide: 26,802 out of 57,524
    • In bioinformatics: 3,629 out of 5,864
  • Year to date:
    • Site-wide: 39,856 out of 57,524
  • Since beginning of last month:
    • Site-wide: 41,677 out of 57,524

A comprehensive map of the dendritic cell transcriptional network engaged upon innate sensing of HIV

immunology more details view paper
  • Downloaded 330 times
  • Download rankings, all-time:
    • Site-wide: 27,432 out of 57,524
    • In immunology: 512 out of 1,373
  • Year to date:
    • Site-wide: 7,085 out of 57,524
  • Since beginning of last month:
    • Site-wide: 21,386 out of 57,524

An Adaptive Geometric Search Algorithm for Macromolecular Scaffold Selection

bioengineering more details view paper
  • Downloaded 275 times
  • Download rankings, all-time:
    • Site-wide: 32,161 out of 57,524
    • In bioengineering: 569 out of 1,104
  • Year to date:
    • Site-wide: 47,017 out of 57,524
  • Since beginning of last month:
    • Site-wide: 48,054 out of 57,524

A novel domain assembly routine for creating full-length models of membrane proteins from known domain structures

biophysics more details view paper
  • Downloaded 186 times
  • Download rankings, all-time:
    • Site-wide: 41,724 out of 57,524
    • In biophysics: 1,753 out of 2,432
  • Year to date:
    • Site-wide: 47,332 out of 57,524
  • Since beginning of last month:
    • Site-wide: 34,973 out of 57,524

Integrative protein modeling in RosettaNMR from sparse paramagnetic restraints

biophysics more details view paper
  • Downloaded 154 times
  • Download rankings, all-time:
    • Site-wide: 45,738 out of 57,524
    • In biophysics: 1,927 out of 2,432
  • Year to date:
    • Site-wide: 20,790 out of 57,524
  • Since beginning of last month:
    • Site-wide: 21,056 out of 57,524

Inference of bacterial small RNA regulatory networks and integration with transcription factor driven regulatory networks

systems biology more details view paper
  • Downloaded 143 times
  • Download rankings, all-time:
    • Site-wide: 47,119 out of 57,524
    • In systems biology: 1,453 out of 1,638
  • Year to date:
    • Site-wide: 22,732 out of 57,524
  • Since beginning of last month:
    • Site-wide: 21,095 out of 57,524

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