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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, National Institutes of Health

Rankings

  • All-time downloads: 114,920 (rank: 225 out of 361,769)
  • Categories:
    • bioinformatics: 67,936 (rank: 10 out of 31,271)
    • genetics: 417 (rank: 22,196 (tie) out of 33,967)
    • genomics: 44,725 (rank: 137 out of 39,128)
    • microbiology: 1,842 (rank: 3,525 out of 39,953)

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Preprints

Towards complete and error-free genome assemblies of all vertebrate species

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

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

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

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

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Mash: fast genome and metagenome distance estimation using MinHash

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

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

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Complete assembly of parental haplotypes with trio binning

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

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A robust benchmark for germline structural variant detection

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

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

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

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

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A Fast Adaptive Algorithm for Computing Whole-Genome Homology Maps

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Automated ensemble assembly and validation of microbial genomes

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

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

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De novo long-read assembly of a complex animal genome

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

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Scaffolding of long read assemblies using long range contact information

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

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HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads

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

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

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

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MetaCompass: Reference-guided Assembly of Metagenomes

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The whale shark genome reveals patterns of vertebrate gene family evolution

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

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Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

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

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

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Effect of Sequence Depth and Length in Long-read Assembly of the Maize Inbred NC358

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Weighted minimizer sampling improves long read mapping

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

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

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

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Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies

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

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

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

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