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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 62,709 bioRxiv papers from 278,266 authors.

Author: Carl Kingsford

  • Most recently observed institution: Carnegie Mellon University

Rankings

  • All-time downloads: 30,570 (rank: 563 out of 278,266)
  • Categories:
    • bioinformatics: 27,052 (rank: 62 out of 24,402)
    • genomics: 3,222 (rank: 4,297 out of 31,942)
    • microbiology: 296 (rank: 14,074 (tie) out of 28,482)

Downloads per author, site-wide

Preprints

Salmon provides accurate, fast, and bias-aware transcript expression estimates using dual-phase inference

bioinformatics more details view paper
  • Downloaded 18,706 times
  • Download rankings, all-time:
    • Site-wide: 33 out of 62,709
    • In bioinformatics: 3 out of 6,243
  • Year to date:
    • Site-wide: 224 out of 62,709
  • Since beginning of last month:
    • Site-wide: 189 out of 62,709

SQUID: Transcriptomic Structural Variation Detection from RNA-seq

bioinformatics more details view paper
  • Downloaded 1,595 times
  • Download rankings, all-time:
    • Site-wide: 3,267 out of 62,709
    • In bioinformatics: 660 out of 6,243
  • Year to date:
    • Site-wide: 20,330 out of 62,709
  • Since beginning of last month:
    • Site-wide: 20,543 out of 62,709

Scallop Enables Accurate Assembly Of Transcripts Through Phasing-Preserving Graph Decomposition

bioinformatics more details view paper
  • Downloaded 1,325 times
  • Download rankings, all-time:
    • Site-wide: 4,457 out of 62,709
    • In bioinformatics: 879 out of 6,243
  • Year to date:
    • Site-wide: 25,992 out of 62,709
  • Since beginning of last month:
    • Site-wide: 15,559 out of 62,709

Isoform-level Ribosome Occupancy Estimation Guided by Transcript Abundance with Ribomap

bioinformatics more details view paper
  • Downloaded 1,112 times
  • Download rankings, all-time:
    • Site-wide: 5,950 out of 62,709
    • In bioinformatics: 1,131 out of 6,243
  • Year to date:
    • Site-wide: 56,097 out of 62,709
  • Since beginning of last month:
    • Site-wide: 39,740 out of 62,709

Chromosomal dynamics predicted by an elastic network model explains genome-wide accessibility and long-range couplings

genomics more details view paper
  • Downloaded 1,026 times
  • Download rankings, all-time:
    • Site-wide: 6,796 out of 62,709
    • In genomics: 1,108 out of 4,312
  • Year to date:
    • Site-wide: 48,071 out of 62,709
  • Since beginning of last month:
    • Site-wide: 53,873 out of 62,709

Improved Search of Large Transcriptomic Sequencing Databases Using Split Sequence Bloom Trees

genomics more details view paper
  • Downloaded 855 times
  • Download rankings, all-time:
    • Site-wide: 9,083 out of 62,709
    • In genomics: 1,380 out of 4,312
  • Year to date:
    • Site-wide: 40,885 out of 62,709
  • Since beginning of last month:
    • Site-wide: 60,748 out of 62,709

Graph-Guided Assembly For Novel HLA Allele Discovery

bioinformatics more details view paper
  • Downloaded 785 times
  • Download rankings, all-time:
    • Site-wide: 10,316 out of 62,709
    • In bioinformatics: 1,779 out of 6,243
  • Year to date:
    • Site-wide: 39,661 out of 62,709
  • Since beginning of last month:
    • Site-wide: 52,414 out of 62,709

Topological data analysis reveals principles of chromosome structure throughout cellular differentiation

genomics more details view paper
  • Downloaded 732 times
  • Download rankings, all-time:
    • Site-wide: 11,406 out of 62,709
    • In genomics: 1,620 out of 4,312
  • Year to date:
    • Site-wide: 2,518 out of 62,709
  • Since beginning of last month:
    • Site-wide: 4,592 out of 62,709

A pathway-centric view of spatial proximity in the 3D nucleome across cell lines

bioinformatics more details view paper
  • Downloaded 676 times
  • Download rankings, all-time:
    • Site-wide: 12,807 out of 62,709
    • In bioinformatics: 2,093 out of 6,243
  • Year to date:
    • Site-wide: 54,255 out of 62,709
  • Since beginning of last month:
    • Site-wide: 59,041 out of 62,709

Compression of short-read sequences using path encoding

bioinformatics more details view paper
  • Downloaded 632 times
  • Download rankings, all-time:
    • Site-wide: 14,030 out of 62,709
    • In bioinformatics: 2,252 out of 6,243
  • Year to date:
    • Site-wide: 58,174 out of 62,709
  • Since beginning of last month:
    • Site-wide: 49,794 out of 62,709

Efficient Heuristic for Decomposing a Flow with Minimum Number of Paths

bioinformatics more details view paper
  • Downloaded 616 times
  • Download rankings, all-time:
    • Site-wide: 14,519 out of 62,709
    • In bioinformatics: 2,310 out of 6,243
  • Year to date:
    • Site-wide: 37,677 out of 62,709
  • Since beginning of last month:
    • Site-wide: 51,930 out of 62,709

Analysis of the structural variability of topologically associated domains as revealed by Hi-C

genomics more details view paper
  • Downloaded 609 times
  • Download rankings, all-time:
    • Site-wide: 14,803 out of 62,709
    • In genomics: 1,920 out of 4,312
  • Year to date:
    • Site-wide: 4,958 out of 62,709
  • Since beginning of last month:
    • Site-wide: 11,776 out of 62,709

Improving the performance of minimizers and winnowing schemes

bioinformatics more details view paper
  • Downloaded 560 times
  • Download rankings, all-time:
    • Site-wide: 16,560 out of 62,709
    • In bioinformatics: 2,554 out of 6,243
  • Year to date:
    • Site-wide: 56,521 out of 62,709
  • Since beginning of last month:
    • Site-wide: 45,223 out of 62,709

Detecting anomalies in RNA-seq quantification

bioinformatics more details view paper
  • Downloaded 404 times
  • Download rankings, all-time:
    • Site-wide: 24,499 out of 62,709
    • In bioinformatics: 3,413 out of 6,243
  • Year to date:
    • Site-wide: 6,931 out of 62,709
  • Since beginning of last month:
    • Site-wide: 24,442 out of 62,709

Quantifying the Benefit Offered by Transcript Assembly on Single-Molecule Long Reads

bioinformatics more details view paper
  • Downloaded 341 times
  • Download rankings, all-time:
    • Site-wide: 29,196 out of 62,709
    • In bioinformatics: 3,853 out of 6,243
  • Year to date:
    • Site-wide: 9,228 out of 62,709
  • Since beginning of last month:
    • Site-wide: 16,081 out of 62,709

Identification of Microbiota-Induced Gene Expression Changes in the Drosophila melanogaster Head

microbiology more details view paper
  • Downloaded 296 times
  • Download rankings, all-time:
    • Site-wide: 33,190 out of 62,709
    • In microbiology: 2,091 out of 5,020
  • Year to date:
    • Site-wide: 11,468 out of 62,709
  • Since beginning of last month:
    • Site-wide: 50,920 out of 62,709

Detecting Transcriptomic Structural Variants in Heterogeneous Contexts via the Multiple Compatible Arrangements Problem

bioinformatics more details view paper
  • Downloaded 153 times
  • Download rankings, all-time:
    • Site-wide: 50,194 out of 62,709
    • In bioinformatics: 5,486 out of 6,243
  • Year to date:
    • Site-wide: 27,229 out of 62,709
  • Since beginning of last month:
    • Site-wide: 19,392 out of 62,709

Maximum Likelihood Reconstruction of Ancestral Networks by Integer Linear Programming

bioinformatics more details view paper
  • Downloaded 147 times
  • Download rankings, all-time:
    • Site-wide: 50,980 out of 62,709
    • In bioinformatics: 5,554 out of 6,243
  • Year to date:
    • Site-wide: 28,459 out of 62,709
  • Since beginning of last month:
    • Site-wide: 30,748 out of 62,709

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