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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 65,415 bioRxiv papers from 289,746 authors.

Author: Sergey Koren

  • ORCiD: http://orcid.org/0000-0002-1472-8962
  • Most recently observed institution: Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute

Rankings

  • All-time downloads: 97,743 (rank: 71 out of 289,746)
  • Categories:
    • bioinformatics: 58,574 (rank: 9 out of 25,231)
    • genetics: 347 (rank: 19,614 (tie) out of 28,741)
    • genomics: 37,133 (rank: 143 out of 32,966)
    • microbiology: 1,689 (rank: 1,592 (tie) out of 29,761)

Downloads per author, site-wide

Preprints

Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing

bioinformatics more details view paper
  • Downloaded 10,871 times
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    • In bioinformatics: 16 out of 6,484
  • Year to date:
    • Site-wide: 3,116 out of 65,415
  • Since beginning of last month:
    • Site-wide: 5,132 out of 65,415

Highly-accurate long-read sequencing improves variant detection and assembly of a human genome

genomics more details view paper
  • Downloaded 9,993 times
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    • Site-wide: 112 out of 65,415
    • In genomics: 35 out of 4,463
  • Year to date:
    • Site-wide: 20 out of 65,415
  • Since beginning of last month:
    • Site-wide: 234 out of 65,415

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

bioinformatics more details view paper
  • Downloaded 7,613 times
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    • Site-wide: 193 out of 65,415
    • In bioinformatics: 33 out of 6,484
  • Year to date:
    • Site-wide: 5,081 out of 65,415
  • Since beginning of last month:
    • Site-wide: 9,467 out of 65,415

Mash: fast genome and metagenome distance estimation using MinHash

bioinformatics more details view paper
  • Downloaded 6,380 times
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    • Site-wide: 272 out of 65,415
    • In bioinformatics: 46 out of 6,484
  • Year to date:
    • Site-wide: 14,740 out of 65,415
  • Since beginning of last month:
    • Site-wide: 14,262 out of 65,415

Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii, a progenitor of bread wheat, with the mega-reads algorithm

bioinformatics more details view paper
  • Downloaded 6,201 times
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    • Site-wide: 291 out of 65,415
    • In bioinformatics: 48 out of 6,484
  • Year to date:
    • Site-wide: 4,278 out of 65,415
  • Since beginning of last month:
    • Site-wide: 8,760 out of 65,415

Integrating Hi-C links with assembly graphs for chromosome-scale assembly

bioinformatics more details view paper
  • Downloaded 6,049 times
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    • Site-wide: 307 out of 65,415
    • In bioinformatics: 54 out of 6,484
  • Year to date:
    • Site-wide: 306 out of 65,415
  • Since beginning of last month:
    • Site-wide: 2,196 out of 65,415

Complete assembly of parental haplotypes with trio binning

genomics more details view paper
  • Downloaded 5,244 times
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    • In genomics: 104 out of 4,463
  • Year to date:
    • Site-wide: 724 out of 65,415
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    • Site-wide: 1,614 out of 65,415

Efficient de novo assembly of eleven human genomes using PromethION sequencing and a novel nanopore toolkit

bioinformatics more details view paper
  • Downloaded 4,522 times
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    • In bioinformatics: 105 out of 6,484
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    • Site-wide: 106 out of 65,415
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    • Site-wide: 169 out of 65,415

A fast approximate algorithm for mapping long reads to large reference databases

bioinformatics more details view paper
  • Downloaded 3,780 times
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    • Site-wide: 739 out of 65,415
    • In bioinformatics: 145 out of 6,484
  • Year to date:
    • Site-wide: 4,178 out of 65,415
  • Since beginning of last month:
    • Site-wide: 3,972 out of 65,415

Improved Aedes aegypti mosquito reference genome assembly enables biological discovery and vector control

genomics more details view paper
  • Downloaded 3,109 times
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    • Site-wide: 1,063 out of 65,415
    • In genomics: 255 out of 4,463
  • Year to date:
    • Site-wide: 4,163 out of 65,415
  • Since beginning of last month:
    • Site-wide: 8,413 out of 65,415

Telomere-to-telomere assembly of a complete human X chromosome

bioinformatics more details view paper
  • Downloaded 3,094 times
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    • Site-wide: 1,079 out of 65,415
    • In bioinformatics: 221 out of 6,484
  • Year to date:
    • Site-wide: 195 out of 65,415
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    • Site-wide: 281 out of 65,415

Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes

genomics more details view paper
  • Downloaded 3,071 times
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    • In genomics: 261 out of 4,463
  • Year to date:
    • Site-wide: 26,662 out of 65,415
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    • Site-wide: 38,191 out of 65,415

Extended haplotype phasing of de novo genome assemblies with FALCON-Phase

genomics more details view paper
  • Downloaded 2,852 times
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    • Site-wide: 1,261 out of 65,415
    • In genomics: 290 out of 4,463
  • Year to date:
    • Site-wide: 1,107 out of 65,415
  • Since beginning of last month:
    • Site-wide: 1,058 out of 65,415

A robust benchmark for germline structural variant detection

genomics more details view paper
  • Downloaded 2,697 times
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    • Site-wide: 1,373 out of 65,415
    • In genomics: 314 out of 4,463
  • Year to date:
    • Site-wide: 260 out of 65,415
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    • Site-wide: 351 out of 65,415

Automated ensemble assembly and validation of microbial genomes

bioinformatics more details view paper
  • Downloaded 1,910 times
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    • In bioinformatics: 518 out of 6,484
  • Year to date:
    • Site-wide: 62,613 out of 65,415
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    • Site-wide: 61,541 out of 65,415

A Fast Adaptive Algorithm for Computing Whole-Genome Homology Maps

bioinformatics more details view paper
  • Downloaded 1,833 times
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    • In bioinformatics: 544 out of 6,484
  • Year to date:
    • Site-wide: 9,159 out of 65,415
  • Since beginning of last month:
    • Site-wide: 14,017 out of 65,415

De Novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole genome duplication

genomics more details view paper
  • Downloaded 1,734 times
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    • In genomics: 592 out of 4,463
  • Year to date:
    • Site-wide: 4,182 out of 65,415
  • Since beginning of last month:
    • Site-wide: 33,926 out of 65,415

De novo long-read assembly of a complex animal genome

genomics more details view paper
  • Downloaded 1,498 times
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    • Site-wide: 3,834 out of 65,415
    • In genomics: 708 out of 4,463
  • Year to date:
    • Site-wide: 44,816 out of 65,415
  • Since beginning of last month:
    • Site-wide: 46,222 out of 65,415

Mash Screen: High-throughput sequence containment estimation for genome discovery

bioinformatics more details view paper
  • Downloaded 1,447 times
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    • Site-wide: 4,072 out of 65,415
    • In bioinformatics: 806 out of 6,484
  • Year to date:
    • Site-wide: 898 out of 65,415
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    • Site-wide: 1,141 out of 65,415

Scaffolding of long read assemblies using long range contact information

genomics more details view paper
  • Downloaded 1,360 times
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    • Site-wide: 4,526 out of 65,415
    • In genomics: 808 out of 4,463
  • Year to date:
    • Site-wide: 45,244 out of 65,415
  • Since beginning of last month:
    • Site-wide: 56,367 out of 65,415

MetaMaps - Strain-level metagenomic assignment and compositional estimation for long reads

bioinformatics more details view paper
  • Downloaded 1,335 times
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    • Site-wide: 4,653 out of 65,415
    • In bioinformatics: 910 out of 6,484
  • Year to date:
    • Site-wide: 7,888 out of 65,415
  • Since beginning of last month:
    • Site-wide: 13,311 out of 65,415

RefSeq database growth influences the accuracy of k-mer-based species identification

bioinformatics more details view paper
  • Downloaded 1,314 times
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    • Site-wide: 4,769 out of 65,415
    • In bioinformatics: 931 out of 6,484
  • Year to date:
    • Site-wide: 24,490 out of 65,415
  • Since beginning of last month:
    • Site-wide: 38,505 out of 65,415

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

genomics more details view paper
  • Downloaded 1,176 times
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    • Site-wide: 5,734 out of 65,415
    • In genomics: 971 out of 4,463
  • Year to date:
    • Site-wide: 28,944 out of 65,415
  • Since beginning of last month:
    • Site-wide: 21,056 out of 65,415

Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

microbiology more details view paper
  • Downloaded 1,057 times
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    • Site-wide: 6,876 out of 65,415
    • In microbiology: 272 out of 5,260
  • Year to date:
    • Site-wide: 3,568 out of 65,415
  • Since beginning of last month:
    • Site-wide: 44,297 out of 65,415

MetaCompass: Reference-guided Assembly of Metagenomes

bioinformatics more details view paper
  • Downloaded 894 times
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    • Site-wide: 8,944 out of 65,415
    • In bioinformatics: 1,561 out of 6,484
  • Year to date:
    • Site-wide: 16,980 out of 65,415
  • Since beginning of last month:
    • Site-wide: 11,947 out of 65,415

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

genomics more details view paper
  • Downloaded 772 times
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    • Site-wide: 11,197 out of 65,415
    • In genomics: 1,608 out of 4,463
  • Year to date:
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  • Since beginning of last month:
    • Site-wide: 9,684 out of 65,415

Analysis of the Aedes albopictus C6/36 genome provides insight into cell line adaptations to in vitro viral propagation

genomics more details view paper
  • Downloaded 746 times
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    • Site-wide: 11,762 out of 65,415
    • In genomics: 1,662 out of 4,463
  • Year to date:
    • Site-wide: 48,201 out of 65,415
  • Since beginning of last month:
    • Site-wide: 51,307 out of 65,415

An improved pig reference genome sequence to enable pig genetics and genomics research

genomics more details view paper
  • Downloaded 736 times
  • Download rankings, all-time:
    • Site-wide: 11,994 out of 65,415
    • In genomics: 1,685 out of 4,463
  • Year to date:
    • Site-wide: 2,991 out of 65,415
  • Since beginning of last month:
    • Site-wide: 2,705 out of 65,415

The Genome of the Zebra Mussel, Dreissena polymorpha: A Resource for Invasive Species Research

genomics more details view paper
  • Downloaded 719 times
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    • Site-wide: 12,411 out of 65,415
    • In genomics: 1,719 out of 4,463
  • Year to date:
    • Site-wide: 3,130 out of 65,415
  • Since beginning of last month:
    • Site-wide: 5,067 out of 65,415

The whale shark genome reveals patterns of vertebrate gene family evolution

genomics more details view paper
  • Downloaded 695 times
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    • Site-wide: 13,070 out of 65,415
    • In genomics: 1,789 out of 4,463
  • Year to date:
    • Site-wide: 3,333 out of 65,415
  • Since beginning of last month:
    • Site-wide: 5,181 out of 65,415

Amycomicin: a potent and specific antibiotic discovered with a targeted interaction screen

microbiology more details view paper
  • Downloaded 632 times
  • Download rankings, all-time:
    • Site-wide: 14,855 out of 65,415
    • In microbiology: 741 out of 5,260
  • Year to date:
    • Site-wide: 27,964 out of 65,415
  • Since beginning of last month:
    • Site-wide: 31,883 out of 65,415

HLA*PRG:LA - HLA typing from linearly projected graph alignments

bioinformatics more details view paper
  • Downloaded 586 times
  • Download rankings, all-time:
    • Site-wide: 16,530 out of 65,415
    • In bioinformatics: 2,552 out of 6,484
  • Year to date:
    • Site-wide: 14,495 out of 65,415
  • Since beginning of last month:
    • Site-wide: 20,327 out of 65,415

A chromosome-scale assembly of the major African malaria vector Anopheles funestus

bioinformatics more details view paper
  • Downloaded 469 times
  • Download rankings, all-time:
    • Site-wide: 21,993 out of 65,415
    • In bioinformatics: 3,158 out of 6,484
  • Year to date:
    • Site-wide: 12,139 out of 65,415
  • Since beginning of last month:
    • Site-wide: 46,893 out of 65,415

Haplotype-Resolved Cattle Genomes Provide Insights Into Structural Variation and Adaptation

genomics more details view paper
  • Downloaded 463 times
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    • Site-wide: 22,320 out of 65,415
    • In genomics: 2,491 out of 4,463
  • Year to date:
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  • Since beginning of last month:
    • Site-wide: 4,062 out of 65,415

The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation

genetics more details view paper
  • Downloaded 347 times
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    • Site-wide: 30,521 out of 65,415
    • In genetics: 1,944 out of 3,699
  • Year to date:
    • Site-wide: 59,032 out of 65,415
  • Since beginning of last month:
    • Site-wide: 63,235 out of 65,415

Chromosome-length haplotigs for yak and cattle from trio binning assembly of an F1 hybrid

bioinformatics more details view paper
  • Downloaded 276 times
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    • Site-wide: 37,383 out of 65,415
    • In bioinformatics: 4,543 out of 6,484
  • Year to date:
    • Site-wide: 14,995 out of 65,415
  • Since beginning of last month:
    • Site-wide: 14,526 out of 65,415

Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

genomics more details view paper
  • Downloaded 268 times
  • Download rankings, all-time:
    • Site-wide: 38,258 out of 65,415
    • In genomics: 3,427 out of 4,463
  • Year to date:
    • Site-wide: 15,627 out of 65,415
  • Since beginning of last month:
    • Site-wide: 7,609 out of 65,415

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