AutoCSA, an algorithm for high throughput DNA sequence variant detection in cancer genomes. - Ed Dicks; Jon W. Teague; Philip Stephens; Keiran Raine; Andrew D. Yates; C. Mattocks; P. Tarpey; Adam P. Butler; Andrew Menzies; David Richardson; Andrew M. Jenkinson; Helen Davies; et al. (Bioinform., 2007)

BioJava: an open-source framework for bioinformatics. - Richard C. G. Holland; Thomas A. Down; Matthew R. Pocock; Andreas Prlic; David S. Huen; Keith James; Sylvain Foisy; Andreas Dräger; Andy Yates; Michael L. Heuer; Mark J. Schreiber (Bioinform., 2008)

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)

BioJava: an open-source framework for bioinformatics in 2012. - Andreas Prlic; Andrew D. Yates; Spencer Bliven; Peter W. Rose; Julius O. B. Jacobsen; Peter V. Troshin; Mark Chapman; Jianjiong Gao; Chuan Hock Koh; Sylvain Foisy; Richard C. G. Holland; Gediminas Rimsa; et al. (Bioinform., 2012)

Ensembl 2012. - Paul Flicek; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Laurent Gil; Leo Gordon; et al. (Nucleic Acids Res., 2012)

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)

Ensembl 2013. - Paul Flicek; Ikhlak Ahmed; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Laurent Gil; et al. (Nucleic Acids Res., 2013)

Ensembl 2014. - Paul Flicek; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Konstantinos Billis; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Stephen Fitzgerald; Laurent Gil; Carlos García-Girón; et al. (Nucleic Acids Res., 2014)

The Ensembl REST API: Ensembl Data for Any Language. - Andrew D. Yates; Kathryn Beal; Stephen Keenan; William M. McLaren; Miguel Pignatelli; Graham R. S. Ritchie; Magali Ruffier; Kieron R. Taylor; Alessandro Vullo; Paul Flicek (Bioinform., 2015)

Ensembl 2015. - Fiona Cunningham; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Konstantinos Billis; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Stephen Fitzgerald; Laurent Gil; Carlos García-Girón; et al. (Nucleic Acids Res., 2015)

Ensembl comparative genomics resources. - Javier Herrero; Matthieu Muffato; Kathryn Beal; Stephen Fitzgerald; Leo Gordon; Miguel Pignatelli; Albert J. Vilella; Stephen M. J. Searle; M. Ridwan Amode; Simon Brent; William Spooner; Eugene Kulesha; et al. (Database J. Biol. Databases Curation, 2016)

Ensembl 2016. - Andrew D. Yates; Wasiu A. Akanni; M. Ridwan Amode; Daniel Barrell; Konstantinos Billis; Denise Carvalho-Silva; Carla A. Cummins; Peter Clapham; Stephen Fitzgerald; Laurent Gil; Carlos García-Girón; Leo Gordon; et al. (Nucleic Acids Res., 2016)

Ensembl core software resources: storage and programmatic access for DNA sequence and genome annotation. - Magali Ruffier; Andreas Kähäri; Monika Komorowska; Stephen Keenan; Matthew R. Laird; Ian Longden; Glenn Proctor; Steve Searle; Daniel M. Staines; Kieron R. Taylor; Alessandro Vullo; Andrew D. Yates; et al. (Database J. Biol. Databases Curation, 2017)

Ensembl 2017. - Bronwen L. Aken; Premanand Achuthan; Wasiu A. Akanni; M. Ridwan Amode; Friederike Bernsdorff; Jyothish Bhai; Konstantinos Billis; Denise Carvalho-Silva; Carla A. Cummins; Peter Clapham; Laurent Gil; Carlos García-Girón; et al. (Nucleic Acids Res., 2017)

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)

Ensembl 2018. - Daniel R. Zerbino; Premanand Achuthan; Wasiu A. Akanni; M. Ridwan Amode; Daniel Barrell; Jyothish Bhai; Konstantinos Billis; Carla A. Cummins; Astrid Gall; Carlos García-Girón; Laurent Gil; Leo Gordon; et al. (Nucleic Acids Res., 2018)

Eleven quick tips to build a usable REST API for life sciences. - Aleksandra Tarkowska; Denise Carvalho-Silva; Charles E. Cook; Edd Turner; Robert D. Finn; Andrew D. Yates (PLoS Comput. Biol., 2018)

Ensembl 2019. - Fiona Cunningham; Premanand Achuthan; Wasiu A. Akanni; James E. Allen; M. Ridwan Amode; Irina M. Armean; Ruth Bennett; Jyothish Bhai; Konstantinos Billis; Sanjay Boddu; Carla A. Cummins; Claire Davidson; et al. (Nucleic Acids Res., 2019)

GENCODE reference annotation for the human and mouse genomes. - Adam Frankish; Mark Diekhans; Anne-Maud Ferreira; Rory Johnson; Irwin Jungreis; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Joel Armstrong; If Barnes; Andrew E. Berry; et al. (Nucleic Acids Res., 2019)

The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences. - Rachel Drysdale; Charles E. Cook; Robert Petryszak; Vivienne Baillie Gerritsen; Mary Barlow; Elisabeth Gasteiger; Franziska Gruhl; Jürgen Haas; Jerry Lanfear; Rodrigo Lopez; Nicole Redaschi; Heinz Stockinger; et al. (Bioinform., 2020)

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)

PHI-base: the pathogen?host interactions database. - Martin Urban; Alayne Cuzick; James Seager; Valerie Wood; Kim Rutherford; Shilpa Yagwakote Venkatesh; Nishadi De Silva; Manuel Carbajo Martinez; Helder Pedro; Andrew D. Yates; Keywan Hassani-Pak; Kim E. Hammond-Kosack (Nucleic Acids Res., 2020)

Ensembl 2020. - Andrew D. Yates; Premanand Achuthan; Wasiu A. Akanni; James E. Allen; Jamie Allen; Jorge Álvarez-Jarreta; M. Ridwan Amode; Irina M. Armean; Andrey G. Azov; Ruth Bennett; Jyothish Bhai; Konstantinos Billis; et al. (Nucleic Acids Res., 2020)

Refget: standardized access to reference sequences. - Andrew D. Yates; Jeremy Adams; Somesh Chaturvedi; Robert Davies; Matthew R. Laird; Rasko Leinonen; Rishi Nag; Nathan C. Sheffield; Oliver Hofmann 001; Thomas M. Keane (Bioinform., 2021)

GENCODE 2021. - Adam Frankish; Mark Diekhans; Irwin Jungreis; Julien Lagarde; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Joel Armstrong; If Barnes; Andrew E. Berry; Alexandra Bignell; et al. (Nucleic Acids Res., 2021)

Ensembl 2021. - Kevin L. Howe; Premanand Achuthan; James E. Allen; Jamie Allen; Jorge Álvarez-Jarreta; M. Ridwan Amode; Irina M. Armean; Andrey G. Azov; Ruth Bennett; Jyothish Bhai; Konstantinos Billis; Sanjay Boddu; et al. (Nucleic Acids Res., 2021)

Ensembl 2022. - Fiona Cunningham; James E. Allen; Jamie Allen; Jorge Álvarez-Jarreta; M. Ridwan Amode; Irina M. Armean; Olanrewaju Austine-Orimoloye; Andrey G. Azov; If Barnes; Ruth Bennett; Andrew E. Berry; Jyothish Bhai; et al. (Nucleic Acids Res., 2022)

The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data. - Nishadi De Silva; Jyothish Bhai; Marc Chakiachvili; Bruno Contreras-Moreira; Carla A. Cummins; Adam Frankish; Astrid Gall; Thiago Augusto Lopes Genez; Kevin L. Howe; Sarah E. Hunt; Fergal J. Martin; Benjamin Moore; et al. (Nucleic Acids Res., 2022)

PHI-base in 2022: a multi-species phenotype database for Pathogen-Host Interactions. - Martin Urban; Alayne Cuzick; James Seager; Valerie Wood; Kim Rutherford; Shilpa Yagwakote Venkatesh; Jashobanta Sahu; S. Vijaylakshmi Iyer; Lokanath Khamari; Nishadi De Silva; Manuel Carbajo Martinez; Helder Pedro; et al. (Nucleic Acids Res., 2022)

Ensembl Genomes 2022: an expanding genome resource for non-vertebrates. - Andrew D. Yates; James E. Allen; M. Ridwan Amode; Andrey G. Azov; Matthieu Barba; Andrés Becerra; Jyothish Bhai; Lahcen I. Campbell; Manuel Carbajo Martinez; Marc Chakiachvili; Kapeel Chougule; Mikkel B. Christensen; et al. (Nucleic Acids Res., 2022)

GENCODE: reference annotation for the human and mouse genomes in 2023. - Adam Frankish; Silvia Carbonell Sala; Mark Diekhans; Irwin Jungreis; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Carme Arnan; If Barnes; Abhimanyu Banerjee; Ruth Bennett; et al. (Nucleic Acids Res., 2023)

Ensembl 2023. - Fergal J. Martin; M. Ridwan Amode; Alisha Aneja; Olanrewaju Austine-Orimoloye; Andrey G. Azov; If Barnes; Arne Becker; Ruth Bennett; Andrew E. Berry; Jyothish Bhai; Simarpreet Kaur Bhurji; Alexandra Bignell; et al. (Nucleic Acids Res., 2023)