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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 62,198 bioRxiv papers from 276,130 authors.

Author: Lior Pachter

  • ORCiD: http://orcid.org/0000-0002-9164-6231
  • Most recently observed institution: Division of Biology and Biological Engineering & Department of Computing and Mathematical Sciences, California Institute of Technology

Rankings

  • All-time downloads: 63,177 (rank: 187 out of 276,130)
  • Categories:
    • bioengineering: 2,984 (rank: 149 (tie) out of 6,795)
    • bioinformatics: 38,916 (rank: 46 out of 24,286)
    • genomics: 21,277 (rank: 308 out of 31,834)

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 8,314 times
  • Download rankings, all-time:
    • Site-wide: 148 out of 62,198
    • In genomics: 47 out of 4,277
  • Year to date:
    • Site-wide: 328 out of 62,198
  • Since beginning of last month:
    • Site-wide: 931 out of 62,198

Differential analysis of RNA-Seq incorporating quantification uncertainty

bioinformatics more details view paper
  • Downloaded 7,624 times
  • Download rankings, all-time:
    • Site-wide: 174 out of 62,198
    • In bioinformatics: 30 out of 6,210
  • Year to date:
    • Site-wide: 2,121 out of 62,198
  • Since beginning of last month:
    • Site-wide: 3,426 out of 62,198

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

bioinformatics more details view paper
  • Downloaded 5,974 times
  • Download rankings, all-time:
    • Site-wide: 292 out of 62,198
    • In bioinformatics: 52 out of 6,210
  • Year to date:
    • Site-wide: 858 out of 62,198
  • Since beginning of last month:
    • Site-wide: 2,399 out of 62,198

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

genomics more details view paper
  • Downloaded 4,850 times
  • Download rankings, all-time:
    • Site-wide: 413 out of 62,198
    • In genomics: 110 out of 4,277
  • Year to date:
    • Site-wide: 9,310 out of 62,198
  • Since beginning of last month:
    • Site-wide: 22,708 out of 62,198

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

bioinformatics more details view paper
  • Downloaded 4,121 times
  • Download rankings, all-time:
    • Site-wide: 586 out of 62,198
    • In bioinformatics: 117 out of 6,210
  • Year to date:
    • Site-wide: 95 out of 62,198
  • Since beginning of last month:
    • Site-wide: 40 out of 62,198

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

genomics more details view paper
  • Downloaded 3,454 times
  • Download rankings, all-time:
    • Site-wide: 820 out of 62,198
    • In genomics: 211 out of 4,277
  • Year to date:
    • Site-wide: 13,032 out of 62,198
  • Since beginning of last month:
    • Site-wide: None out of 62,198

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

bioengineering more details view paper
  • Downloaded 2,984 times
  • Download rankings, all-time:
    • Site-wide: 1,072 out of 62,198
    • In bioengineering: 15 out of 1,231
  • Year to date:
    • Site-wide: 175 out of 62,198
  • Since beginning of last month:
    • Site-wide: 1,537 out of 62,198

Association Mapping From Sequencing Reads Using K-mers

bioinformatics more details view paper
  • Downloaded 2,731 times
  • Download rankings, all-time:
    • Site-wide: 1,266 out of 62,198
    • In bioinformatics: 260 out of 6,210
  • Year to date:
    • Site-wide: 14,128 out of 62,198
  • Since beginning of last month:
    • Site-wide: 23,171 out of 62,198

Barcode identification for single cell genomics

bioinformatics more details view paper
  • Downloaded 2,203 times
  • Download rankings, all-time:
    • Site-wide: 1,843 out of 62,198
    • In bioinformatics: 379 out of 6,210
  • Year to date:
    • Site-wide: 8,583 out of 62,198
  • Since beginning of last month:
    • Site-wide: 21,749 out of 62,198

RNA velocity and protein acceleration from single-cell multiomics experiments

bioinformatics more details view paper
  • Downloaded 2,099 times
  • Download rankings, all-time:
    • Site-wide: 2,015 out of 62,198
    • In bioinformatics: 415 out of 6,210
  • Year to date:
    • Site-wide: 338 out of 62,198
  • Since beginning of last month:
    • Site-wide: 1,508 out of 62,198

Gene-level differential analysis at transcript-level resolution

bioinformatics more details view paper
  • Downloaded 2,027 times
  • Download rankings, all-time:
    • Site-wide: 2,147 out of 62,198
    • In bioinformatics: 444 out of 6,210
  • Year to date:
    • Site-wide: 17,446 out of 62,198
  • Since beginning of last month:
    • Site-wide: 25,532 out of 62,198

Fusion detection and quantification by pseudoalignment

bioinformatics more details view paper
  • Downloaded 1,958 times
  • Download rankings, all-time:
    • Site-wide: 2,291 out of 62,198
    • In bioinformatics: 474 out of 6,210
  • Year to date:
    • Site-wide: 4,072 out of 62,198
  • Since beginning of last month:
    • Site-wide: 5,752 out of 62,198

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

bioinformatics more details view paper
  • Downloaded 1,887 times
  • Download rankings, all-time:
    • Site-wide: 2,427 out of 62,198
    • In bioinformatics: 498 out of 6,210
  • Year to date:
    • Site-wide: 427 out of 62,198
  • Since beginning of last month:
    • Site-wide: 263 out of 62,198

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

genomics more details view paper
  • Downloaded 1,823 times
  • Download rankings, all-time:
    • Site-wide: 2,574 out of 62,198
    • In genomics: 527 out of 4,277
  • Year to date:
    • Site-wide: 450 out of 62,198
  • Since beginning of last month:
    • Site-wide: 12 out of 62,198

The Barcode, UMI, Set format and BUStools

bioinformatics more details view paper
  • Downloaded 1,762 times
  • Download rankings, all-time:
    • Site-wide: 2,735 out of 62,198
    • In bioinformatics: 557 out of 6,210
  • Year to date:
    • Site-wide: 1,815 out of 62,198
  • Since beginning of last month:
    • Site-wide: 6,358 out of 62,198

A direct comparison of genome alignment and transcriptome pseudoalignment

bioinformatics more details view paper
  • Downloaded 1,401 times
  • Download rankings, all-time:
    • Site-wide: 4,017 out of 62,198
    • In bioinformatics: 804 out of 6,210
  • Year to date:
    • Site-wide: 2,443 out of 62,198
  • Since beginning of last month:
    • Site-wide: 977 out of 62,198

Expression reflects population structure

genomics more details view paper
  • Downloaded 1,176 times
  • Download rankings, all-time:
    • Site-wide: 5,329 out of 62,198
    • In genomics: 915 out of 4,277
  • Year to date:
    • Site-wide: 35,056 out of 62,198
  • Since beginning of last month:
    • Site-wide: 45,994 out of 62,198

Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathways

bioinformatics more details view paper
  • Downloaded 1,115 times
  • Download rankings, all-time:
    • Site-wide: 5,827 out of 62,198
    • In bioinformatics: 1,118 out of 6,210
  • Year to date:
    • Site-wide: 48,069 out of 62,198
  • Since beginning of last month:
    • Site-wide: 38,863 out of 62,198

SWALO: scaffolding with assembly likelihood optimization

bioinformatics more details view paper
  • Downloaded 1,071 times
  • Download rankings, all-time:
    • Site-wide: 6,254 out of 62,198
    • In bioinformatics: 1,181 out of 6,210
  • Year to date:
    • Site-wide: 40,659 out of 62,198
  • Since beginning of last month:
    • Site-wide: 33,974 out of 62,198

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

bioinformatics more details view paper
  • Downloaded 1,022 times
  • Download rankings, all-time:
    • Site-wide: 6,730 out of 62,198
    • In bioinformatics: 1,239 out of 6,210
  • Year to date:
    • Site-wide: 1,338 out of 62,198
  • Since beginning of last month:
    • Site-wide: 4,358 out of 62,198

Column subset selection for single-cell RNA-Seq clustering

bioinformatics more details view paper
  • Downloaded 977 times
  • Download rankings, all-time:
    • Site-wide: 7,213 out of 62,198
    • In bioinformatics: 1,319 out of 6,210
  • Year to date:
    • Site-wide: 45,333 out of 62,198
  • Since beginning of last month:
    • Site-wide: 41,521 out of 62,198

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

bioinformatics more details view paper
  • Downloaded 944 times
  • Download rankings, all-time:
    • Site-wide: 7,603 out of 62,198
    • In bioinformatics: 1,364 out of 6,210
  • Year to date:
    • Site-wide: 54,537 out of 62,198
  • Since beginning of last month:
    • Site-wide: 43,249 out of 62,198

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

genomics more details view paper
  • Downloaded 863 times
  • Download rankings, all-time:
    • Site-wide: 8,784 out of 62,198
    • In genomics: 1,351 out of 4,277
  • Year to date:
    • Site-wide: 50,142 out of 62,198
  • Since beginning of last month:
    • Site-wide: 45,781 out of 62,198

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

genomics more details view paper
  • Downloaded 797 times
  • Download rankings, all-time:
    • Site-wide: 9,935 out of 62,198
    • In genomics: 1,467 out of 4,277
  • Year to date:
    • Site-wide: 54,112 out of 62,198
  • Since beginning of last month:
    • Site-wide: None out of 62,198

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