PK
Paul J. Kersey
Databases, GeneticGenomicsGenome, PlantgenomicsComparative genomicsDatabases, Nucleic AcidDatabases, ProteinSoftwareGenomeGenome browser
On Valency
published · living versionsW_26xzgw86·v1 · currentpublished
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
with Keith R. Bradnam, Joseph N. Fass, Anton Alexandrov, Paul Baranay +86
1 version
Preprints & journals
101 papers in the corpus · 1995–2026The genome sequence of Slender Tare, Vicia parviflora Cav. (Fabales: Fabaceae).42876551 · Christenhusz, Maarten J M, Kersey, Paul J, Márquez-Corro, José Ignacio et al.2026 · 0 citationsWellcome open research. 2026;11:696
Integrating plant phenotypic and genotypic data in the AGENT project: a BrAPI service implementation.42097287 · Brouwer, Matthijs, Bauernfeind, Jens, Davuluri, Gouripriya et al.2026 · 2 citationsBioinformatics (Oxford, England). 2026;42(5)
Wheat historical phenotypic data from European genebanks as an important resource for research and breeding.41771879 · Le Floch, Erwan, Adam-Blondon, Anne-Françoise, Alaux, Michael et al.2026 · 3 citationsScientific data. 2026;13(1)
Patterns of aDNA damage through time and environments-lessons from herbarium specimens.41784526 · Porrelli, Stefano, Fornasiero, Alice, Le, Hong Phuong et al.2026 · 4 citationsGigaScience. 2026;15
A comparison of 27 Arabidopsis thaliana genomes and the path toward an unbiased characterization of genetic polymorphism.40830656 · Igolkina, Anna A, Vorbrugg, Sebastian, Rabanal, Fernando A et al.2025 · 30 citationsNature genetics. 2025;57(9):2289-2301
AI-based prediction of herbarium sequencing success across the plant tree of life10.1101/2025.02.03.636220v1 · Ranjbaran, Y., Maurin, O., Canadelli, E. et al.2025 · 1 citationbioRxiv
BrAPI v2: real-world applications for data integration and collaboration in the breeding and genetics community.40996713 · Selby, Peter, Abbeloos, Rafael, Adam-Blondon, Anne-Francoise et al.2025 · 14 citationsDatabase : the journal of biological databases and curation. 2025;2025
The 1001G+ project: A curated collection of Arabidopsis thaliana long-read genome assemblies to advance plant research10.1101/2024.12.23.629943v2 · Alonso-Blanco, C. C., Ashkenazy, H., Baduel, P. et al.2024 · 3 citationsbioRxiv
A DNA barcoding framework for taxonomic verification in the Darwin Tree of Life Project.39386966 · Twyford, Alex D, Beasley, Jordan, Barnes, Ian et al.2026 · 827 citationsWellcome open research. 2024;9:339
Towards an unbiased characterization of genetic polymorphism10.1101/2024.05.30.596703v2 · Igolkina, A., Vorbrugg, S., Rabanal, F. et al.2024 · 11 citationsbioRxiv
Phylogenomics and the rise of the angiosperms.38658746 · Zuntini, Alexandre R, Carruthers, Tom, Maurin, Olivier et al.2024 · 433 citationsNature. 2024;629(8013):843-850
Physical infrastructure and global capacity are both needed to fight biodiversity loss.38040836 · Kersey, Paul J, Antonelli, Alexandre2023 · 3 citationsNature plants. 2023;9(12):1940
Comparative evolutionary analyses of eight whitefly Bemisia tabaci sensu lato genomes: cryptic species, agricultural pests and plant-virus vectors.37468834 · Campbell, Lahcen I, Nwezeobi, Joachim, van Brunschot, Sharon L et al.2023 · 21 citationsBMC genomics. 2023;24(1):408
Comparative analysis of repeat content in plant genomes, large and small.37521909 · Argentin, Joris, Bolser, Dan, Kersey, Paul J et al.2026 · 8 citationsFrontiers in plant science. 2023;14:1103035
Recommendations for the formatting of Variant Call Format (VCF) files to make plant genotyping data FAIR.35811804 · Beier, Sebastian, Fiebig, Anne, Pommier, Cyril et al.2022 · 10 citationsF1000Research. 2022;11
A Comprehensive Phylogenomic Platform for Exploring the Angiosperm Tree of Life.33983440 · Baker, William J, Bailey, Paul, Barber, Vanessa et al.2022 · 309 citationsSystematic biology. 2022;71(2):301-319
The Earth BioGenome Project 2020: Starting the clock.35042800 · Lewin, Harris A, Richards, Stephen, Lieberman Aiden, Erez et al.2022 · 329 citationsProceedings of the National Academy of Sciences of the United States of America. 2022;119(4)
Standards recommendations for the Earth BioGenome Project.35042802 · Lawniczak, Mara K N, Durbin, Richard, Flicek, Paul et al.2022 · 96 citationsProceedings of the National Academy of Sciences of the United States of America. 2022;119(4)
Green plant genomes: What we know in an era of rapidly expanding opportunities.35042803 · Kress, W John, Soltis, Douglas E, Kersey, Paul J et al.2022 · 156 citationsProceedings of the National Academy of Sciences of the United States of America. 2022;119(4)
The salmon louse genome: Copepod features and parasitic adaptations.34403763 · Skern-Mauritzen, Rasmus, Malde, Ketil, Eichner, Christiane et al.2022 · 31 citationsGenomics. 2021;113(6):3666-3680
Data management challenges for artificial intelligence in plant and agricultural research.36873457 · Williamson, Hugh F, Brettschneider, Julia, Caccamo, Mario et al.2025 · 52 citationsF1000Research. 2021;10:324
Gramene 2021: harnessing the power of comparative genomics and pathways for plant research.33170273 · Tello-Ruiz, Marcela K, Naithani, Sushma, Gupta, Parul et al.2021 · 120 citationsNucleic acids research. 2021;49(D1):D1452-D1463
Mobilizing Crop Biodiversity.32835887 · McCouch, Susan, Navabi, Zahra Katy, Abberton, Michael et al.2021 · 94 citationsMolecular plant. 2020;13(10):1341-1344
Untapped resources for medical research.32792391 · Pérez-Escobar, Oscar A, Richardson, James E, Howes, Melanie-Jayne R et al.2020 · 12 citationsScience (New York, N.Y.). 2020;369(6505):781-782
Enabling reusability of plant phenomic datasets with MIAPPE 1.1.32171029 · Papoutsoglou, Evangelia A, Faria, Daniel, Arend, Daniel et al.2021 · 183 citationsThe New phytologist. 2020;227(1):260-273
Ensembl Genomes 2020-enabling non-vertebrate genomic research.31598706 · Howe, Kevin L, Contreras-Moreira, Bruno, De Silva, Nishadi et al.2020 · 466 citationsNucleic acids research. 2020;48(D1):D689-D695
Collaborative Annotation Redefines Gene Sets for Crucial Phytopathogens.31787936 · Pedro, Helder, Yates, Andrew D, Kersey, Paul J et al.2025 · 11 citationsFrontiers in microbiology. 2019;10:2477
COPO: a metadata platform for brokering FAIR data in the life sciences10.1101/782771v1 · Etuk, A., Shaw, F., Gonzalez-Beltran, A. et al.2019 · 36 citationsbioRxiv
Factors Affecting Targeted Sequencing of 353 Nuclear Genes From Herbarium Specimens Spanning the Diversity of Angiosperms.31620145 · Brewer, Grace E, Clarkson, James J, Maurin, Olivier et al.2023 · 162 citationsFrontiers in plant science. 2019;10:1102
Plant genome sequences: past, present, future.30579050 · Kersey, Paul Julian2020 · 174 citationsCurrent opinion in plant biology. 2019;48:1-8
The genome of the biting midge Culicoides sonorensis and gene expression analyses of vector competence for bluetongue virus.30134833 · Morales-Hojas, Ramiro, Hinsley, Malcolm, Armean, Irina M et al.2018 · 47 citationsBMC genomics. 2018;19(1):624
Corrigendum: Towards recommendations for metadata and data handling in plant phenotyping.29471492 · Krajewski, Pawel, Chen, Dijun, Cwiek, Hanna et al.2019 · 2 citationsJournal of experimental botany. 2018;69(7):1819
Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms.29556065 · Rastogi, Achal, Maheswari, Uma, Dorrell, Richard G et al.2019 · 127 citationsScientific reports. 2018;8(1):4834
Plant genetic resources for food and agriculture: opportunities and challenges emerging from the science and information technology revolution.29359808 · Halewood, Michael, Chiurugwi, Tinashe, Sackville Hamilton, Ruaraidh et al.2019 · 142 citationsThe New phytologist. 2018;217(4):1407-1419
WormBase 2017: molting into a new stage.29069413 · Lee, Raymond Y N, Howe, Kevin L, Harris, Todd W et al.2019 · 178 citationsNucleic acids research. 2018;46(D1):D869-D874
Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species.29092050 · Kersey, Paul Julian, Allen, James E, Allot, Alexis et al.2019 · 447 citationsNucleic acids research. 2018;46(D1):D802-D808
Gramene 2018: unifying comparative genomics and pathway resources for plant research.29165610 · Tello-Ruiz, Marcela K, Naithani, Sushma, Stein, Joshua C et al.2019 · 172 citationsNucleic acids research. 2018;46(D1):D1181-D1189
Using WormBase ParaSite: An Integrated Platform for Exploring Helminth Genomic Data.29761467 · Bolt, Bruce J, Rodgers, Faye H, Shafie, Myriam et al.2019 · 56 citationsMethods in molecular biology (Clifton, N.J.). 2018;1757:471-491
Integrative analysis of large scale transcriptome data draws a comprehensive functional landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms10.1101/176024v2 · Rastogi, A., Maheswari, U., Dorrell, R. G. et al.2017 · 2 citationsbioRxiv
An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations.28420692 · Clavijo, Bernardo J, Venturini, Luca, Schudoma, Christian et al.2018 · 413 citationsGenome research. 2017;27(5):885-896
Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.28448065 · Beier, Sebastian, Himmelbach, Axel, Colmsee, Christian et al.2018 · 150 citationsScientific data. 2017;4:170044
A chromosome conformation capture ordered sequence of the barley genome.28447635 · Mascher, Martin, Gundlach, Heidrun, Himmelbach, Axel et al.2017 · 1,448 citationsNature. 2017;544(7651):427-433
Ensembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomic Data.27987162 · Bolser, Dan M, Staines, Daniel M, Perry, Emily et al.2018 · 385 citationsMethods in molecular biology (Clifton, N.J.). 2017;1533:1-31
WormBase ParaSite - a comprehensive resource for helminth genomics.27899279 · Howe, Kevin L, Bolt, Bruce J, Shafie, Myriam et al.2018 · 748 citationsMolecular and biochemical parasitology. 2017;215:2-10
Towards an open grapevine information system.27917288 · Adam-Blondon, A-F, Alaux, M, Pommier, C et al.2020 · 40 citationsHorticulture research. 2016;3:16056
Measures for interoperability of phenotypic data: minimum information requirements and formatting.27843484 · Ćwiek-Kupczyńska, Hanna, Altmann, Thomas, Arend, Daniel et al.2024 · 130 citationsPlant methods. 2016;12:44
Gramene Database: Navigating Plant Comparative Genomics Resources.28713666 · Gupta, Parul, Naithani, Sushma, Tello-Ruiz, Marcela Karey et al.2022 · 58 citationsCurrent plant biology. 2016;7-8:10-15
RNAcentral: a comprehensive database of non-coding RNA sequences.27794554 · The RNAcentral Consortium, Petrov, Anton I, Kay, Simon J E et al.2017 · 258 citationsNucleic acids research. 2017;45(D1):D128-D134
First Draft Genome Sequence of a UK Strain (UK99) of Fusarium culmorum.27634986 · Urban, Martin, King, Robert, Andongabo, Ambrose et al.2016 · 24 citationsGenome announcements. 2016;4(5)
Advancing vector biology research: a community survey for future directions, research applications and infrastructure requirements.27677378 · Kohl, Alain, Pondeville, Emilie, Schnettler, Esther et al.2017 · 4 citationsPathogens and global health. 2016;110(4-5):164-72
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