Proteome Analysis: Application of InterPro and CluSTr for the Functional Classification of Proteins in Whole Genomes. - Margaret Biswas; Rolf Apweiler; Wolfgang Fleischmann; Alexander Kanapin; Youla Karavidopoulou; Paul J. Kersey; Evgenia V. Kriventseva; Virginie Mittard; Nicola J. Mulder; Thomas M. Oinn; Isabelle Phan; Evgeni M. Zdobnov (German Conference on Bioinformatics, 2000)

VARSPLIC: alternatively-spliced protein sequences derived from SWISS-PROT and TrEMBL. - Paul J. Kersey; Henning Hermjakob; Rolf Apweiler (Bioinform., 2000)

Technical comment to "Database verification studies of SWISS-PROT and GenBank" by Karp et al. - Rolf Apweiler; Paul J. Kersey; Vivien Junker; Amos Bairoch (Bioinform., 2001)

Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes. - Rolf Apweiler; Margaret Biswas; Wolfgang Fleischmann; Alexander Kanapin; Youla Karavidopoulou; Paul J. Kersey; Evgenia V. Kriventseva; Virginie Mittard; Nicola J. Mulder; Isabelle Phan; Evgeni M. Zdobnov (Nucleic Acids Res., 2001)

Applications of InterPro in Protein Annotation and Genome Analysis. - Margaret Biswas; Joseph F. O'Rourke; Evelyn Camon; Gillian Fraser; Alexander Kanapin; Youla Karavidopoulou; Paul J. Kersey; Evgenia V. Kriventseva; Virginie Mittard; Nicola J. Mulder; Isabelle Phan; Florence Servant; et al. (Briefings Bioinform., 2002)

Interactive InterPro-based comparisons of proteins in whole genomes. - Alexander Kanapin; Rolf Apweiler; Margaret Biswas; Wolfgang Fleischmann; Youla Karavidopoulou; Paul J. Kersey; Evgenia V. Kriventseva; Virginie Mittard; Nicola J. Mulder; Thomas M. Oinn; Isabelle Phan; Florence Servant; et al. (Bioinform., 2002)

Automated annotation of microbial proteomes in SWISS-PROT. - Alexandre Gattiker; Karine Michoud; Catherine Rivoire; Andrea H. Auchincloss; Elisabeth Coudert; Tania Lima; Paul J. Kersey; Marco Pagni; Christian J. A. Sigrist; Corinne Lachaize; Anne-Lise Veuthey; Elisabeth Gasteiger; et al. (Comput. Biol. Chem., 2003)

The Proteome Analysis database: a tool for the in silico analysis of whole proteomes. - Manuela Pruess; Wolfgang Fleischmann; Alexander Kanapin; Youla Karavidopoulou; Paul J. Kersey; Evgenia V. Kriventseva; Virginie Mittard; Nicola J. Mulder; Isabelle Phan; Florence Servant; Rolf Apweiler (Nucleic Acids Res., 2003)

The Integr8 project - a resource for genomic and proteomic data. - Manuela Pruess; Paul J. Kersey; Rolf Apweiler (Silico Biol., 2004)

Integrating Genomic and Proteomic Data: The Integr8 Project. - Manuela Pruess; Paul J. Kersey; Rolf Apweiler (J. Integr. Bioinform., 2004)

Biological Databases: Infrastructure, Content and Integration. - Allyson L. Williams; Paul J. Kersey; Manuela Pruess; Rolf Apweiler (Data Analysis and Visualization in Genomics and Proteomics, 2005)

Integr8 and Genome Reviews: integrated views of complete genomes and proteomes. - Paul J. Kersey; Lawrence Bower; Lorna Morris; Alan Horne; Robert Petryszak; Carola Kanz; Alexander Kanapin; Ujjwal Das; Karine Michoud; Isabelle Phan; Alexandre Gattiker; Tamara Kulikova; et al. (Nucleic Acids Res., 2005)

UTRdb and UTRsite: a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs. - Flavio Mignone; Giorgio Grillo; Flavio Licciulli; Michele Iacono; Sabino Liuni; Paul J. Kersey; Jorge Duarte; Cecilia Saccone; Graziano Pesole (Nucleic Acids Res., 2005)

Ensembl Genomes: Extending Ensembl across the taxonomic space. - Paul J. Kersey; Daniel Lawson; Ewan Birney; Paul S. Derwent; Matthias Haimel; Javier Herrero; Stephen Keenan; Arnaud Kerhornou; Gautier Koscielny; Andreas Kähäri; Rhoda Kinsella; Eugene Kulesha; et al. (Nucleic Acids Res., 2010)

Ensembl BioMarts: a hub for data retrieval across taxonomic space. - Rhoda Kinsella; Andreas Kähäri; Syed Haider; Jorge Zamora; Glenn Proctor; Giulietta Spudich; Jeff Almeida-King; Daniel M. Staines; Paul S. Derwent; Arnaud Kerhornou; Paul J. Kersey; Paul Flicek (Database J. Biol. Databases Curation, 2011)

Gramene database in 2010: updates and extensions. - Ken Youens-Clark; Edward S. Buckler; Terry M. Casstevens; Charles Chen; Genevieve DeClerck; Paul S. Derwent; Palitha Dharmawardhana; Pankaj Jaiswal; Paul J. Kersey; A. S. Karthikeyan; Jerry Lu; Susan McCouch; et al. (Nucleic Acids Res., 2011)

Ensembl Genomes: an integrative resource for genome-scale data from non-vertebrate species. - Paul J. Kersey; Daniel M. Staines; Daniel Lawson; Eugene Kulesha; Paul S. Derwent; Jay C. Humphrey; Daniel S. T. Hughes; Stephen Keenan; Arnaud Kerhornou; Gautier Koscielny; Nicholas Langridge; Mark D. McDowall; et al. (Nucleic Acids Res., 2012)

PomBase: a comprehensive online resource for fission yeast. - Valerie Wood; Midori A. Harris; Mark D. McDowall; Kim Rutherford; Brendan W. Vaughan; Daniel M. Staines; Martin Aslett; Antonia Lock; Jürg Bähler; Paul J. Kersey; Stephen G. Oliver (Nucleic Acids Res., 2012)

WormBase 2012: more genomes, more data, new website. - Karen Yook; Todd W. Harris; Tamberlyn Bieri; Abigail Cabunoc; Juancarlos Chan; Wen J. Chen; Paul Davis 001; Norie De La Cruz; Adrian Duong; Ruihua Fang; Uma Ganesan; Christian A. Grove; et al. (Nucleic Acids Res., 2012)

WormBase 2014: new views of curated biology. - Todd W. Harris; Joachim Baran; Tamberlyn Bieri; Abigail Cabunoc; Juancarlos Chan; Wen J. Chen; Paul Davis 001; James Done; Christian A. Grove; Kevin L. Howe; Ranjana Kishore; Raymond Y. N. Lee; et al. (Nucleic Acids Res., 2014)

Ensembl Genomes 2013: scaling up access to genome-wide data. - Paul Julian Kersey; James E. Allen; Mikkel B. Christensen; Paul Davis 001; Lee J. Falin; Christoph Grabmueller; Daniel Seth Toney Hughes; Jay C. Humphrey; Arnaud Kerhornou; Julia Khobova; Nicholas Langridge; Mark D. McDowall; et al. (Nucleic Acids Res., 2014)

Gramene 2013: comparative plant genomics resources. - Marcela K. Monaco; Joshua C. Stein; Sushma Naithani; Sharon Wei; Palitha Dharmawardhana; Sunita Kumari; Vindhya Amarasinghe; Ken Youens-Clark; James Thomason; Justin Preece; Shiran Pasternak; Andrew Olson; et al. (Nucleic Acids Res., 2014)

COPO - Linked Open Infrastructure for Plant Data. - Felix Shaw; Anthony Etuk; Alejandra N. González-Beltrán; Philippe Rocca-Serra; Paul J. Kersey; Ruth Bastow; Susanna-Assunta Sansone; Vicky Schneider; Robert P. Davey; David Johnson 006 (SWAT4LS, 2015)

PomBase 2015: updates to the fission yeast database. - Mark D. McDowall; Midori A. Harris; Antonia Lock; Kim Rutherford; Daniel M. Staines; Jürg Bähler; Paul J. Kersey; Stephen G. Oliver; Valerie Wood (Nucleic Acids Res., 2015)

WormBase 2016: expanding to enable helminth genomic research. - Kevin L. Howe; Bruce J. Bolt; Scott Cain; Juancarlos Chan; Wen J. Chen; Paul Davis 001; James Done; Thomas A. Down; Sibyl Gao; Christian A. Grove; Todd W. Harris; Ranjana Kishore; et al. (Nucleic Acids Res., 2016)

Ensembl Genomes 2016: more genomes, more complexity. - Paul Julian Kersey; James E. Allen; Irina M. Armean; Sanjay Boddu; Bruce J. Bolt; Denise Carvalho-Silva; Mikkel B. Christensen; Paul Davis 001; Lee J. Falin; Christoph Grabmueller; Jay C. Humphrey; Arnaud Kerhornou; et al. (Nucleic Acids Res., 2016)

PhytoPath: an integrative resource for plant pathogen genomics. - Helder Pedro; Uma Maheswari; Martin Urban; Alistair George Irvine; Alayne Cuzick; Mark D. McDowall; Daniel M. Staines; Eugene Kulesha; Kim Elizabeth Hammond-Kosack; Paul Julian Kersey (Nucleic Acids Res., 2016)

Gramene 2016: comparative plant genomics and pathway resources. - Marcela K. Tello-Ruiz; Joshua C. Stein; Sharon Wei; Justin Preece; Andrew Olson; Sushma Naithani; Vindhya Amarasinghe; Palitha Dharmawardhana; Yinping Jiao; Joseph Mulvaney; Sunita Kumari; Kapeel Chougule; et al. (Nucleic Acids Res., 2016)

Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species. - Paul Julian Kersey; James E. Allen; Alexis Allot; Matthieu Barba; Sanjay Boddu; Bruce J. Bolt; Denise Carvalho-Silva; Mikkel B. Christensen; Paul Davis 001; Christoph Grabmueller; Navin Kumar; Zicheng Liu 004; et al. (Nucleic Acids Res., 2018)

WormBase 2017: molting into a new stage. - Raymond Y. N. Lee; Kevin L. Howe; Todd W. Harris; Valerio Arnaboldi; Scott Cain; Juancarlos Chan; Wen J. Chen; Paul Davis 001; Sibyl Gao; Christian A. Grove; Ranjana Kishore; Hans-Michael Müller; et al. (Nucleic Acids Res., 2018)

Gramene 2018: unifying comparative genomics and pathway resources for plant research. - Marcela K. Tello-Ruiz; Sushma Naithani; Joshua C. Stein; Parul Gupta; Michael Campbell; Andrew Olson; Sharon Wei; Justin Preece; Matthew J. Geniza; Yinping Jiao; Young Koung Lee; Bo Wang 117; et al. (Nucleic Acids Res., 2018)

Ensembl Genomes 2020 - enabling non-vertebrate genomic research. - Kevin L. Howe; Bruno Contreras-Moreira; Nishadi De Silva; Gareth Maslen; Wasiu A. Akanni; James E. Allen; Jorge Álvarez-Jarreta; Matthieu Barba; Dan M. Bolser; Lahcen Cambell; Manuel Carbajo; Marc Chakiachvili; et al. (Nucleic Acids Res., 2020)

Data management challenges for artificial intelligence in plant and agricultural research. - Hugh F. Williamson; Julia Brettschneider; Mario Cáccamo; Robert P. Davey; Carole A. Goble; Paul J. Kersey; Sean T. May; Richard J. Morris; Richard Ostler; Tony P. Pridmore; Christopher J. Rawlings; David J. Studholme; et al. (F1000Research, 2021)

Gramene 2021: harnessing the power of comparative genomics and pathways for plant research. - Marcela K. Tello-Ruiz; Sushma Naithani; Parul Gupta; Andrew Olson; Sharon Wei; Justin Preece; Yinping Jiao; Bo Wang 117; Kapeel Chougule; Priyanka Garg; Justin Elser; Sunita Kumari; et al. (Nucleic Acids Res., 2021)

MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads. - Marcela Uliano-Silva; João Gabriel R. N. Ferreira; Ksenia Krasheninnikova; Mark L. Blaxter; Nova Mieszkowska; Neil Hall; Peter Holland; Richard Durbin; Thomas Richards; Paul J. Kersey; Peter Hollingsworth; Willie Wilson; et al. (BMC Bioinform., 2023)