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Author Details

Sergey Koren
National Human Genome Research Institute, National Institutes of Health
2008
102
52
PMIDPaper TitleJournal TitlePublished Year
38036856Improved sequence mapping using a complete reference genome and lift-over.Nat Methods2024
36208288A contiguous de novo genome assembly of sugar beet EL10 (Beta vulgaris L.).DNA Res2023
38077089The Complete Sequence and Comparative Analysis of Ape Sex Chromosomes.bioRxiv2023
37786714The genome of the colonial hydroid <i>Hydractinia</i> reveals their stem cells utilize a toolkit of evolutionarily shared genes with all animals.bioRxiv2023
37612512The complete sequence of a human Y chromosome.Nature2023
37609174The reference genome of the paradise fish (<i>Macropodus opercularis</i>).bioRxiv2023
37189337Genome and Genetic Engineering of the House Cricket (<i>Acheta domesticus</i>): A Resource for Sustainable Agriculture.Biomolecules2023
37013528Reference genomes of channel catfish and blue catfish reveal multiple pericentric chromosome inversions.BMC Biol2023
37165241Recombination between heterologous human acrocentric chromosomes.Nature2023
37398417The variation and evolution of complete human centromeres.bioRxiv2023
37332563Scalable telomere-to-telomere assembly for diploid and polyploid genomes with double graph.ArXiv2023
36865218Phased nanopore assembly with Shasta and modular graph phasing with GFAse.bioRxiv2023
36797493Telomere-to-telomere assembly of diploid chromosomes with Verkko.Nat Biotechnol2023
34897429The genome of the zebra mussel, Dreissena polymorpha: a resource for comparative genomics, invasion genetics, and biocontrol.G3 (Bethesda)2022
35365778Long-read mapping to repetitive reference sequences using Winnowmap2.Nat Methods2022
35361932Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation.Nat Methods2022
35361931Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies.Nat Methods2022
35357935A complete reference genome improves analysis of human genetic variation.Science2022
35357917Segmental duplications and their variation in a complete human genome.Science2022
36161920A family of unusual immunoglobulin superfamily genes in an invertebrate histocompatibility complex.Proc Natl Acad Sci U S A2022
35328000The Genome of <i>Rhyzopertha dominica</i> (Fab.) (Coleoptera: Bostrichidae): Adaptation for Success.Genes (Basel)2022
34253230Author Correction: Improved reference genome of the arboviral vector Aedes albopictus.Genome Biol2021
33911273Towards complete and error-free genome assemblies of all vertebrate species.Nature2021
33911078Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C.Nat Commun2021
33910227Evolutionary and biomedical insights from a marmoset diploid genome assembly.Nature2021
33828295The structure, function and evolution of a complete human chromosome 8.Nature2021
34409936The whale shark genome reveals patterns of vertebrate gene family evolution.Elife2021
32191811De novo assembly of the cattle reference genome with single-molecule sequencing.Gigascience2020
31898513Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies.BMC Biol2020
32686750Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes.Nat Biotechnol2020
32801147HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads.Genome Res2020
32657365Weighted minimizer sampling improves long read mapping.Bioinformatics2020
32847630Improved reference genome of the arboviral vector Aedes albopictus.Genome Biol2020
32928274Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies.Genome Biol2020
32699374Author Correction: A robust benchmark for detection of germline large deletions and insertions.Nat Biotechnol2020
32242610Continuous chromosome-scale haplotypes assembled from a single interspecies F1 hybrid of yak and cattle.Gigascience2020
32385271Effect of sequence depth and length in long-read assembly of the maize inbred NC358.Nat Commun2020
32541955A robust benchmark for detection of germline large deletions and insertions.Nat Biotechnol2020
32350247Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle.Nat Commun2020
28968737Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes.Brief Bioinform2019
31690338Mash Screen: high-throughput sequence containment estimation for genome discovery.Genome Biol2019
31856728New insights into mammalian sex chromosome structure and evolution using high-quality sequences from bovine X and Y chromosomes.BMC Genomics2019
31296857Strain-level metagenomic assignment and compositional estimation for long reads with MetaMaps.Nat Commun2019
31433799Integrating Hi-C links with assembly graphs for chromosome-scale assembly.PLoS Comput Biol2019
31406327Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome.Nat Biotechnol2019
31375138Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation.Genome Biol2019
31249862De novo assembly of the goldfish (<i>Carassius auratus</i>) genome and the evolution of genes after whole-genome duplication.Sci Adv2019
30942877HLA*LA-HLA typing from linearly projected graph alignments.Bioinformatics2019
30670797Reply to 'Errors in long-read assemblies can critically affect protein prediction'.Nat Biotechnol2019
29325570De novo assembly of the complex genome of Nippostrongylus brasiliensis using MinION long reads.BMC Biol2018
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Collaborators

Adam M Phillippy
National Human Genome Research Institute, National Institutes of Health
Co-authored papers 75
Todd J Treangen
Co-authored papers 12
Evan E Eichler
University of Washington
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Mihai Pop
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Michael C Schatz
Johns Hopkins University
Co-authored papers 11
Fran??oise Thibaud-Nissen
National Center for Biotechnology Information, National Institutes of Health
Co-authored papers 10
Benedict Paten
UC Santa Cruz Genomics Institute, University of California
Co-authored papers 9
Joyce Lee
Co-authored papers 8
Justin M Zook
National Institute of Standards and Technology
Co-authored papers 7
Alexander Dilthey
Co-authored papers 7
Chirag Jain
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Fritz J Sedlazeck
Baylor College of Medicine
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Zhijian Tu
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James C Mullikin
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Nathan D Olson
National Institute of Standards and Technology
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Nancy F Hansen
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Jared T Simpson
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Alex R Hastie
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Mark Diekhans
Genomics Institute, University of California Santa Cruz
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Granger Sutton
J. Craig Venter Institute
Co-authored papers 5
Jennifer L Gerton
Stowers Institute for Medical Research
Co-authored papers 5
Arkarachai Fungtammasan
DNAnexus Inc.
Co-authored papers 5
Richard Durbin
University of Cambridge
Co-authored papers 4
Miten Jain
Northeastern University
Co-authored papers 4
Rick Tearle
Davies Livestock Research Centre, University of Adelaide
Co-authored papers 4
Olivier Fedrigo
The Rockefeller University
Co-authored papers 4
Tobias Marschall
Center for Digital Medicine, Heinrich Heine University Dusseldorf
Co-authored papers 4
Richard E Green
Co-authored papers 4
David Haussler
Genomics Institute, University of California Santa Cruz
Co-authored papers 4
Omar S Akbari
University of California
Co-authored papers 4
Release 1.2