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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 67,459 bioRxiv papers from 297,237 authors.

Author: John C Marioni

Rankings

  • All-time downloads: 27,885 (rank: 745 out of 297,237)
  • Categories:
    • bioinformatics: 14,210 (rank: 155 out of 25,887)
    • developmental biology: 6,647 (rank: 28 out of 11,226)
    • genomics: 5,470 (rank: 2,340 out of 33,740)
    • immunology: 1,558 (rank: 858 (tie) out of 13,961)

Downloads per author, site-wide

Preprints

Single cell multi-omics profiling reveals a hierarchical epigenetic landscape during mammalian germ layer specification

developmental biology more details view paper
  • Downloaded 5,258 times
  • Download rankings, all-time:
    • Site-wide: 404 out of 67,459
    • In developmental biology: 5 out of 2,005
  • Year to date:
    • Site-wide: 85 out of 67,459
  • Since beginning of last month:
    • Site-wide: 332 out of 67,459

Correcting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours.

bioinformatics more details view paper
  • Downloaded 4,819 times
  • Download rankings, all-time:
    • Site-wide: 469 out of 67,459
    • In bioinformatics: 94 out of 6,644
  • Year to date:
    • Site-wide: 6,776 out of 67,459
  • Since beginning of last month:
    • Site-wide: 17,617 out of 67,459

RNA-seq gene profiling - a systematic empirical comparison

bioinformatics more details view paper
  • Downloaded 3,838 times
  • Download rankings, all-time:
    • Site-wide: 746 out of 67,459
    • In bioinformatics: 146 out of 6,644
  • Year to date:
    • Site-wide: 45,503 out of 67,459
  • Since beginning of last month:
    • Site-wide: 63,545 out of 67,459

Distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data

bioinformatics more details view paper
  • Downloaded 2,973 times
  • Download rankings, all-time:
    • Site-wide: 1,203 out of 67,459
    • In bioinformatics: 239 out of 6,644
  • Year to date:
    • Site-wide: 1,353 out of 67,459
  • Since beginning of last month:
    • Site-wide: 10,931 out of 67,459

Single-cell RNA-seq of differentiating iPS cells reveals dynamic genetic effects on gene expression

genomics more details view paper
  • Downloaded 1,979 times
  • Download rankings, all-time:
    • Site-wide: 2,490 out of 67,459
    • In genomics: 515 out of 4,579
  • Year to date:
    • Site-wide: 549 out of 67,459
  • Since beginning of last month:
    • Site-wide: 1,481 out of 67,459

Staged developmental mapping and X chromosome transcriptional dynamics during mouse spermatogenesis

developmental biology more details view paper
  • Downloaded 1,389 times
  • Download rankings, all-time:
    • Site-wide: 4,539 out of 67,459
    • In developmental biology: 87 out of 2,005
  • Year to date:
    • Site-wide: 7,350 out of 67,459
  • Since beginning of last month:
    • Site-wide: 9,761 out of 67,459

Detection and removal of barcode swapping in single-cell RNA-seq data

genomics more details view paper
  • Downloaded 1,378 times
  • Download rankings, all-time:
    • Site-wide: 4,605 out of 67,459
    • In genomics: 818 out of 4,579
  • Year to date:
    • Site-wide: 11,843 out of 67,459
  • Since beginning of last month:
    • Site-wide: 13,929 out of 67,459

Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis

genomics more details view paper
  • Downloaded 1,109 times
  • Download rankings, all-time:
    • Site-wide: 6,606 out of 67,459
    • In genomics: 1,076 out of 4,579
  • Year to date:
    • Site-wide: 25,482 out of 67,459
  • Since beginning of last month:
    • Site-wide: 41,315 out of 67,459

Resolving the fibrotic niche of human liver cirrhosis using single-cell transcriptomics

immunology more details view paper
  • Downloaded 1,075 times
  • Download rankings, all-time:
    • Site-wide: 6,949 out of 67,459
    • In immunology: 112 out of 1,718
  • Year to date:
    • Site-wide: 1,743 out of 67,459
  • Since beginning of last month:
    • Site-wide: 1,826 out of 67,459

Beyond comparisons of means: understanding changes in gene expression at the single-cell level

genomics more details view paper
  • Downloaded 1,004 times
  • Download rankings, all-time:
    • Site-wide: 7,732 out of 67,459
    • In genomics: 1,226 out of 4,579
  • Year to date:
    • Site-wide: 56,710 out of 67,459
  • Since beginning of last month:
    • Site-wide: 65,452 out of 67,459

MOFA+: a probabilistic framework for comprehensive integration of structured single-cell data

bioinformatics more details view paper
  • Downloaded 743 times
  • Download rankings, all-time:
    • Site-wide: 12,365 out of 67,459
    • In bioinformatics: 2,032 out of 6,644
  • Year to date:
    • Site-wide: 3,339 out of 67,459
  • Since beginning of last month:
    • Site-wide: 104 out of 67,459

Overcoming confounding plate effects in differential expression analyses of single-cell RNA-seq data

bioinformatics more details view paper
  • Downloaded 715 times
  • Download rankings, all-time:
    • Site-wide: 13,080 out of 67,459
    • In bioinformatics: 2,126 out of 6,644
  • Year to date:
    • Site-wide: 52,951 out of 67,459
  • Since beginning of last month:
    • Site-wide: 46,878 out of 67,459

CellBender remove-background: a deep generative model for unsupervised removal of background noise from scRNA-seq datasets

bioinformatics more details view paper
  • Downloaded 705 times
  • Download rankings, all-time:
    • Site-wide: 13,335 out of 67,459
    • In bioinformatics: 2,161 out of 6,644
  • Year to date:
    • Site-wide: 3,663 out of 67,459
  • Since beginning of last month:
    • Site-wide: 435 out of 67,459

Rora regulates activated T helper cells during inflammation

immunology more details view paper
  • Downloaded 483 times
  • Download rankings, all-time:
    • Site-wide: 22,176 out of 67,459
    • In immunology: 416 out of 1,718
  • Year to date:
    • Site-wide: 6,938 out of 67,459
  • Since beginning of last month:
    • Site-wide: 20,282 out of 67,459

Investigating higher order interactions in single cell data with scHOT

bioinformatics more details view paper
  • Downloaded 417 times
  • Download rankings, all-time:
    • Site-wide: 26,305 out of 67,459
    • In bioinformatics: 3,578 out of 6,644
  • Year to date:
    • Site-wide: 8,885 out of 67,459
  • Since beginning of last month:
    • Site-wide: 283 out of 67,459

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