ArticleNature biotechnology2024
Scalable, accessible and reproducible reference genome assembly and evaluation in Galaxy.
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Article in Nature biotechnology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 55 papers.
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55citing papers in PubMed
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Who cites it
55 citing papers in PubMed.
- A chromosome-level genome of the Nicobar pigeon, Caloenas nicobarica.The Journal of heredity · 2026Article
- Article
- A High-Quality Haplotype-Resolved Reference Genome for Drakensberger Cattle (Bos taurus indicus/taurus) Achieved Through Trio-Binned Long-Read Sequencing.Scientific data · 2026Article
- The Complete Mitochondrial Genome and Phylogenetic Position of the Pacific Spiny DogfishEcology and evolution · 2026Article
- Galaxy for accessible, reproducible, and collaborative data analyses: 2026 update.Nucleic acids research · 2026Article
- New genomic resources and the historical demography of the Tourmaline Sunangel (Trochilidae, Heliangelus exortis) in the Colombian Andes.The Journal of heredity · 2026Article
- Tutorial: annotation of animal genomes.Nature protocols · 2026Review
- The Vertebrate Genomes Project Phase I: A global reference genome resource.bioRxiv : the preprint server for biology · 2026Article
- A Recipe for a Good π. How to Properly Estimate Population Genetics Summary Statistics and Why we Should Systematically Report Them.Genome biology and evolution · 2026Article
- Chromosome-level assembly of the Critically Endangered school shark, Galeorhinus galeus (Linnaeus, 1758).Scientific data · 2026Article
- The reference genome of the Asian Elephant (Elephas maximus): a foundation for conservation and genomic research.BMC genomics · 2026Article
- A chromosome-level genome assembly of the South African indigenous, Kolbroek pig, Sus scrofa domesticus.Scientific data · 2026Article
- Silver chimaera genome highlights lineage-specific sex chromosome and opsin gene evolution in holocephalans.DNA research : an international journal for rapid publication of reports on genes and genomes · 2026Article
- Ten common misconceptions about Galaxy (and why they are wrong!).PLoS computational biology · 2026Article
- A high-quality chromosome level genome assembly of the South African indigenous Nguni goat (Capra hircus).Scientific data · 2026Article
- MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes.GigaScience · 2026Article
- The Chromosome-Scale Genome Assembly of the Redlip Blenny, Ophioblennius macclurei (Blenniidae).Genome biology and evolution · 2026Article
- Pipeasm: a tool for automated large chromosome-scale genome assembly and evaluation.Bioinformatics advances · 2026Article
- Puzzler: scalable one-command platinum-quality genome assembly from HiFi and Hi-C.Bioinformatics advances · 2026Article
- The genome sequence ofWellcome open research · 2026Article
Corrections and comments
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Authors and funding
41 authors.
Delphine Larivière *Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA.ORCID http://orcid.org/0000-0001-6421-3484
Linelle Abueg *Vertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Nadolina Brajuka *Vertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Cristóbal Gallardo-AlbaBioinformatics Group, Department of Computer Science, Albert-Ludwigs University Freiburg, Freiburg, Germany.
Bjorn GrüningBioinformatics Group, Department of Computer Science, Albert-Ludwigs University Freiburg, Freiburg, Germany.ORCID http://orcid.org/0000-0002-3079-6586
Byung June KoDepartment of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, Republic of Korea.
Alex OstrovskyDepartments of Biology and Computer Science, Johns Hopkins University, Baltimore, MD, USA.
Marc Palmada-FloresDepartment of Medicine and Life Sciences (MELIS), Institut de Biologia Evolutiva, Universitat Pompeu Fabra-CSIC, Barcelona, Spain.ORCID http://orcid.org/0000-0003-0246-5226
Brandon D PickettGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA.ORCID http://orcid.org/0000-0001-8235-4440
Keon RabbaniDepartment of Quantitative and Computational Biology, University of Southern California, Los Angeles, CA, USA.ORCID http://orcid.org/0009-0004-1448-2167
Agostinho AntunesCIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal.ORCID http://orcid.org/0000-0002-1328-1732
Jennifer R BalaccoVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Mark J P ChaissonDepartment of Quantitative and Computational Biology, University of Southern California, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0001-5395-1457
Haoyu ChengDepartment of Data Sciences, Dana-Farber Cancer Institute, Boston, MA, USA.
Joanna CollinsWellcome Sanger Institute, Cambridge, UK.
Melanie CoutureVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Alexandra DenisovaFaculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia.ORCID http://orcid.org/0000-0002-5061-2211
Olivier FedrigoVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.ORCID http://orcid.org/0000-0002-6450-7551
Guido Roberto GalloDepartment of Biosciences, University of Milan, Milan, Italy.ORCID http://orcid.org/0000-0001-5980-0326
Alice Maria GianiBMRI, Weill Cornell Medical College, New York, NY, USA.ORCID http://orcid.org/0000-0001-8805-7826
Grenville MacDonald GooderVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Kathleen HoranVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Nivesh JainVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.ORCID http://orcid.org/0000-0002-8134-2904
Cassidy JohnsonVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Heebal KimDepartment of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, Republic of Korea.ORCID http://orcid.org/0000-0003-3064-1303
Chul LeeInterdisciplinary Program in Bioinformatics, Seoul National University, Seoul, Republic of Korea.
Tomas Marques-BonetDepartment of Medicine and Life Sciences (MELIS), Institut de Biologia Evolutiva, Universitat Pompeu Fabra-CSIC, Barcelona, Spain.ORCID http://orcid.org/0000-0002-5597-3075
Brian O'TooleVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.
Arang RhieGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA.
Simona SecomandiDepartment of Biological Sciences, University of Cyprus, Nicosia, Cyprus.ORCID http://orcid.org/0000-0001-8597-6034
Marcella SozzoniUniversity of Florence, Department of Biology, Florence, Italy.
Tatiana TilleyVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA.ORCID http://orcid.org/0009-0001-9277-7743
Marcela Uliano-SilvaTree of Life, Wellcome Sanger Institute, Cambridge, UK.
Marius van den BeekDepartment of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA.ORCID http://orcid.org/0000-0002-9676-7032
Robert W WilliamsDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA.ORCID http://orcid.org/0000-0001-8924-4447
Robert M WaterhouseDepartment of Ecology & Evolution and Swiss Institute of Bioinformatics, University of Lausanne, Lausanne, Switzerland.ORCID http://orcid.org/0000-0003-4199-9052
Adam M PhillippyGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, USA.ORCID http://orcid.org/0000-0003-2983-8934
Erich D JarvisVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA. ejarvis@rockefeller.edu.ORCID http://orcid.org/0000-0001-8931-5049
Michael C SchatzDepartments of Biology and Computer Science, Johns Hopkins University, Baltimore, MD, USA. mschatz@cs.jhu.edu.ORCID http://orcid.org/0000-0002-4118-4446
Anton NekrutenkoDepartment of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA. anton@nekrut.org.
Giulio FormentiVertebrate Genome Laboratory, The Rockefeller University, New York, NY, USA. gformenti@rockefeller.edu.ORCID http://orcid.org/0000-0002-7554-5991
Funding
Implementing the Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL)U24HG010263 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI Enis Afgan, VINCENT JAMES CAREY · 2018 to 2026
$23.8MDemocratization of Data Analysis in Life Sciences Through GalaxyU41HG006620 · NHGRI · PENNSYLVANIA STATE UNIVERSITY, THE · PI NEKRUTENKO, ANTON, SCHATZ, MICHAEL · 2012 to 2020
$14.4MDemocratization of Data Analysis in Life Sciences Through GalaxyU24HG006620 · NHGRI · PENNSYLVANIA STATE UNIVERSITY, THE · PI Daniel James Blankenberg, Jeremy Goecks · 2021 to 2026
$9.8MA Federated Galaxy for user-friendly large-scale cancer genomics researchU24CA231877 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI GOECKS, JEREMY · 2018 to 2022
$3.9MDetection and genotyping complex human genetic variation using single-molecule sequencingR01HG011649 · NHGRI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Mark Chaisson · 2021 to 2026
$2.5MIntegrative genomic and epigenomic analysis of cancer using long read sequencingU01CA253481 · NCI · JOHNS HOPKINS UNIVERSITY · PI SCHATZ, MICHAEL · 2021 to 2023
$1.1MNCI NIH HHS U01 CA253481NCI NIH HHS U24 CA231877NHGRI NIH HHS R01 HG011649NHGRI NIH HHS U24 HG006620NHGRI NIH HHS U24 HG010263NHGRI NIH HHS U41 HG006620
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