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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 67,580 bioRxiv papers from 297,970 authors.

Author: Lior Pachter

Rankings

  • All-time downloads: 69,431 (rank: 170 out of 297,970)
  • Categories:
    • bioengineering: 3,118 (rank: 145 (tie) out of 7,565)
    • bioinformatics: 41,412 (rank: 46 out of 25,936)
    • genomics: 24,901 (rank: 250 out of 33,977)

Downloads per author, site-wide

Preprints

Highly Multiplexed Single-Cell RNA-seq for Defining Cell Population and Transcriptional Spaces

genomics more details view paper
  • Downloaded 8,800 times
  • Download rankings, all-time:
    • Site-wide: 155 out of 67,580
    • In genomics: 46 out of 4,580
  • Year to date:
    • Site-wide: 321 out of 67,580
  • Since beginning of last month:
    • Site-wide: 764 out of 67,580

Differential analysis of RNA-Seq incorporating quantification uncertainty

bioinformatics more details view paper
  • Downloaded 7,760 times
  • Download rankings, all-time:
    • Site-wide: 196 out of 67,580
    • In bioinformatics: 31 out of 6,650
  • Year to date:
    • Site-wide: 2,304 out of 67,580
  • Since beginning of last month:
    • Site-wide: 6,501 out of 67,580

Identification of transcriptional signatures for cell types from single-cell RNA-Seq

bioinformatics more details view paper
  • Downloaded 6,147 times
  • Download rankings, all-time:
    • Site-wide: 309 out of 67,580
    • In bioinformatics: 54 out of 6,650
  • Year to date:
    • Site-wide: 991 out of 67,580
  • Since beginning of last month:
    • Site-wide: 2,775 out of 67,580

Fast and accurate single-cell RNA-Seq analysis by clustering of transcript-compatibility counts

genomics more details view paper
  • Downloaded 4,888 times
  • Download rankings, all-time:
    • Site-wide: 455 out of 67,580
    • In genomics: 119 out of 4,580
  • Year to date:
    • Site-wide: 11,086 out of 67,580
  • Since beginning of last month:
    • Site-wide: 22,937 out of 67,580

Modular and efficient pre-processing of single-cell RNA-seq

bioinformatics more details view paper
  • Downloaded 4,843 times
  • Download rankings, all-time:
    • Site-wide: 467 out of 67,580
    • In bioinformatics: 92 out of 6,650
  • Year to date:
    • Site-wide: 98 out of 67,580
  • Since beginning of last month:
    • Site-wide: 251 out of 67,580

Shannon: An Information-Optimal de Novo RNA-Seq Assembler

genomics more details view paper
  • Downloaded 3,553 times
  • Download rankings, all-time:
    • Site-wide: 863 out of 67,580
    • In genomics: 220 out of 4,580
  • Year to date:
    • Site-wide: 11,279 out of 67,580
  • Since beginning of last month:
    • Site-wide: 9,333 out of 67,580

Design principles for open source bioinstrumentation: the poseidon syringe pump system as an example

bioengineering more details view paper
  • Downloaded 3,118 times
  • Download rankings, all-time:
    • Site-wide: 1,107 out of 67,580
    • In bioengineering: 14 out of 1,363
  • Year to date:
    • Site-wide: 230 out of 67,580
  • Since beginning of last month:
    • Site-wide: 4,372 out of 67,580

Association Mapping From Sequencing Reads Using K-mers

bioinformatics more details view paper
  • Downloaded 2,766 times
  • Download rankings, all-time:
    • Site-wide: 1,379 out of 67,580
    • In bioinformatics: 274 out of 6,650
  • Year to date:
    • Site-wide: 16,225 out of 67,580
  • Since beginning of last month:
    • Site-wide: 36,271 out of 67,580

A curated database reveals trends in single-cell transcriptomics

genomics more details view paper
  • Downloaded 2,649 times
  • Download rankings, all-time:
    • Site-wide: 1,475 out of 67,580
    • In genomics: 332 out of 4,580
  • Year to date:
    • Site-wide: 306 out of 67,580
  • Since beginning of last month:
    • Site-wide: 294 out of 67,580

Interpretable factor models of single-cell RNA-seq via variational autoencoders

bioinformatics more details view paper
  • Downloaded 2,505 times
  • Download rankings, all-time:
    • Site-wide: 1,633 out of 67,580
    • In bioinformatics: 323 out of 6,650
  • Year to date:
    • Site-wide: 350 out of 67,580
  • Since beginning of last month:
    • Site-wide: 712 out of 67,580

RNA velocity and protein acceleration from single-cell multiomics experiments

bioinformatics more details view paper
  • Downloaded 2,265 times
  • Download rankings, all-time:
    • Site-wide: 1,972 out of 67,580
    • In bioinformatics: 398 out of 6,650
  • Year to date:
    • Site-wide: 442 out of 67,580
  • Since beginning of last month:
    • Site-wide: 4,804 out of 67,580

Barcode identification for single cell genomics

bioinformatics more details view paper
  • Downloaded 2,256 times
  • Download rankings, all-time:
    • Site-wide: 1,983 out of 67,580
    • In bioinformatics: 401 out of 6,650
  • Year to date:
    • Site-wide: 9,681 out of 67,580
  • Since beginning of last month:
    • Site-wide: 15,988 out of 67,580

Quantifying the tradeoff between sequencing depth and cell number in single-cell RNA-seq

genomics more details view paper
  • Downloaded 2,124 times
  • Download rankings, all-time:
    • Site-wide: 2,211 out of 67,580
    • In genomics: 466 out of 4,580
  • Year to date:
    • Site-wide: 488 out of 67,580
  • Since beginning of last month:
    • Site-wide: 2,140 out of 67,580

Gene-level differential analysis at transcript-level resolution

bioinformatics more details view paper
  • Downloaded 2,049 times
  • Download rankings, all-time:
    • Site-wide: 2,351 out of 67,580
    • In bioinformatics: 477 out of 6,650
  • Year to date:
    • Site-wide: 21,142 out of 67,580
  • Since beginning of last month:
    • Site-wide: 32,042 out of 67,580

Fusion detection and quantification by pseudoalignment

bioinformatics more details view paper
  • Downloaded 2,043 times
  • Download rankings, all-time:
    • Site-wide: 2,363 out of 67,580
    • In bioinformatics: 478 out of 6,650
  • Year to date:
    • Site-wide: 4,502 out of 67,580
  • Since beginning of last month:
    • Site-wide: 12,772 out of 67,580

The Barcode, UMI, Set format and BUStools

bioinformatics more details view paper
  • Downloaded 1,835 times
  • Download rankings, all-time:
    • Site-wide: 2,827 out of 67,580
    • In bioinformatics: 568 out of 6,650
  • Year to date:
    • Site-wide: 2,253 out of 67,580
  • Since beginning of last month:
    • Site-wide: 12,608 out of 67,580

A direct comparison of genome alignment and transcriptome pseudoalignment

bioinformatics more details view paper
  • Downloaded 1,641 times
  • Download rankings, all-time:
    • Site-wide: 3,415 out of 67,580
    • In bioinformatics: 678 out of 6,650
  • Year to date:
    • Site-wide: 2,122 out of 67,580
  • Since beginning of last month:
    • Site-wide: 1,718 out of 67,580

Expression reflects population structure

genomics more details view paper
  • Downloaded 1,192 times
  • Download rankings, all-time:
    • Site-wide: 5,855 out of 67,580
    • In genomics: 987 out of 4,580
  • Year to date:
    • Site-wide: 40,886 out of 67,580
  • Since beginning of last month:
    • Site-wide: 55,083 out of 67,580

Compositional Data Analysis is necessary for simulating and analyzing RNA-Seq data

bioinformatics more details view paper
  • Downloaded 1,136 times
  • Download rankings, all-time:
    • Site-wide: 6,326 out of 67,580
    • In bioinformatics: 1,179 out of 6,650
  • Year to date:
    • Site-wide: 1,601 out of 67,580
  • Since beginning of last month:
    • Site-wide: 8,369 out of 67,580

Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathways

bioinformatics more details view paper
  • Downloaded 1,129 times
  • Download rankings, all-time:
    • Site-wide: 6,392 out of 67,580
    • In bioinformatics: 1,191 out of 6,650
  • Year to date:
    • Site-wide: 54,590 out of 67,580
  • Since beginning of last month:
    • Site-wide: 64,420 out of 67,580

SWALO: scaffolding with assembly likelihood optimization

bioinformatics more details view paper
  • Downloaded 1,100 times
  • Download rankings, all-time:
    • Site-wide: 6,699 out of 67,580
    • In bioinformatics: 1,231 out of 6,650
  • Year to date:
    • Site-wide: 42,526 out of 67,580
  • Since beginning of last month:
    • Site-wide: 34,072 out of 67,580

Column subset selection for single-cell RNA-Seq clustering

bioinformatics more details view paper
  • Downloaded 986 times
  • Download rankings, all-time:
    • Site-wide: 7,984 out of 67,580
    • In bioinformatics: 1,409 out of 6,650
  • Year to date:
    • Site-wide: 53,519 out of 67,580
  • Since beginning of last month:
    • Site-wide: 62,022 out of 67,580

The Lair: A resource for exploratory analysis of published RNA-Seq data

bioinformatics more details view paper
  • Downloaded 951 times
  • Download rankings, all-time:
    • Site-wide: 8,487 out of 67,580
    • In bioinformatics: 1,473 out of 6,650
  • Year to date:
    • Site-wide: 62,611 out of 67,580
  • Since beginning of last month:
    • Site-wide: 65,106 out of 67,580

Prober: A general toolkit for analyzing sequencing-based 'toeprinting' assays

genomics more details view paper
  • Downloaded 884 times
  • Download rankings, all-time:
    • Site-wide: 9,496 out of 67,580
    • In genomics: 1,425 out of 4,580
  • Year to date:
    • Site-wide: 54,035 out of 67,580
  • Since beginning of last month:
    • Site-wide: 48,686 out of 67,580

Accurate design of translational output by a neural network model of ribosome distribution

genomics more details view paper
  • Downloaded 811 times
  • Download rankings, all-time:
    • Site-wide: 10,896 out of 67,580
    • In genomics: 1,578 out of 4,580
  • Year to date:
    • Site-wide: 60,291 out of 67,580
  • Since beginning of last month:
    • Site-wide: 60,652 out of 67,580

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