Dasty2, an Ajax protein DAS client. - Rafael C. Jiménez; Antony F. Quinn; Alexander García Castro; Alberto Labarga; Kieran O'Neill; Fernando Martinez; Gustavo A. Salazar; Henning Hermjakob (Bioinform., 2008)

The Protein Feature Ontology: a tool for the unification of protein feature annotations. - Gabrielle A. Reeves; Karen Eilbeck; Michele Magrane; Claire O'Donovan; Luisa Montecchi-Palazzi; Midori A. Harris; Sandra E. Orchard; Rafael C. Jiménez; Andreas Prlic; Tim J. P. Hubbard; Henning Hermjakob; Janet M. Thornton (Bioinform., 2008)

Integrating biological data - the Distributed Annotation System. - Andrew M. Jenkinson; Mario Albrecht; Ewan Birney; Hagen Blankenburg; Thomas A. Down; Robert D. Finn; Henning Hermjakob; Tim J. P. Hubbard; Rafael C. Jiménez; Philip Jones; Andreas Kähäri; Eugene Kulesha; et al. (BMC Bioinform., 2008)

OntoDas - a tool for facilitating the construction of complex queries to the Gene Ontology. - Kieran O'Neill; Alexander García Castro; Anita Schwegmann; Rafael C. Jiménez; Dan Jacobson; Henning Hermjakob (BMC Bioinform., 2008)

Dasty3, a WEB framework for DAS. - Jose M. Villaveces; Rafael C. Jiménez; Leyla J. García; Gustavo A. Salazar; Bernat Gel; Nicola J. Mulder; Maria Jesus Martin; Alexander García Castro; Henning Hermjakob (Bioinform., 2011)

easyDAS: Automatic creation of DAS servers. - Bernat Gel; Andrew M. Jenkinson; Rafael C. Jiménez; Xavier Messeguer Peypoch; Henning Hermjakob (BMC Bioinform., 2011)

DAS Writeback: A Collaborative Annotation System. - Gustavo A. Salazar; Rafael C. Jiménez; Alexander García Castro; Henning Hermjakob; Nicola J. Mulder; Edwin H. Blake (BMC Bioinform., 2011)

Bioinformatics Training Network (BTN): a community resource for bioinformatics trainers. - Maria Victoria Schneider; Peter Walter; Marie-Claude Blatter; James Watson; Michelle D. Brazas; Kristian Rother; Aidan Budd; Allegra Via; Celia W. G. van Gelder; Joachim Jacob; Pedro L. Fernandes; Tommi H. Nyrönen; et al. (Briefings Bioinform., 2012)

The IntAct molecular interaction database in 2012. - Samuel Kerrien; Bruno Aranda; Lionel Breuza; Alan J. Bridge; Fiona Broackes-Carter; Carol Chen; Margaret J. Duesbury; Marine Dumousseau; Marc Feuermann; Ursula Hinz; Christine Jandrasits; Rafael C. Jiménez; et al. (Nucleic Acids Res., 2012)

Teaching the Fundamentals of Biological Data Integration Using Classroom Games. - Maria Victoria Schneider; Rafael C. Jiménez (PLoS Comput. Biol., 2012)

Best practices in bioinformatics training for life scientists. - Allegra Via; Thomas Blicher; Erik Bongcam-Rudloff; Michelle D. Brazas; Catherine Brooksbank; Aidan Budd; Javier De Las Rivas; Jacqueline Dreyer; Pedro L. Fernandes; Celia W. G. van Gelder; Joachim Jacob; Rafael C. Jiménez; et al. (Briefings Bioinform., 2013)

BioJS: an open source JavaScript framework for biological data visualization. - John Gómez; Leyla J. García; Gustavo A. Salazar; Jose M. Villaveces; Swanand P. Gore; Alexander García Castro; Maria Jesus Martin; Guillaume Launay; Rafael Alcántara; Noemi del-Toro; Marine Dumousseau; Sandra E. Orchard; et al. (Bioinform., 2013)

iAnn: an event sharing platform for the life sciences. - Rafael C. Jiménez; Juan P. Albar; Jong Bhak; Marie-Claude Blatter; Thomas Blicher; Michelle D. Brazas; Catherine Brooksbank; Aidan Budd; Javier De Las Rivas; Jacqueline Dreyer; Marc A. van Driel; Michael J. Dunn; et al. (Bioinform., 2013)

A new reference implementation of the PSICQUIC web service. - Noemi del-Toro; Marine Dumousseau; Sandra E. Orchard; Rafael C. Jiménez; Eugenia Galeota; Guillaume Launay; Johannes Goll; Karin Breuer; Keiichiro Ono; Lukasz Salwínski; Henning Hermjakob (Nucleic Acids Res., 2013)

BioJS: an open source standard for biological visualisation - its status in 2014. - Manuel Corpas; Rafael C. Jiménez; Seth Carbon; Alexander García Castro; Leyla Jael Castro; Tatyana Goldberg; John Gómez; Alex Kalderimis; Suzanna E. Lewis; Ian Mulvany; Aleksandra Pawlik; Francis Rowland; et al. (F1000Research, 2014)

Sequence, a BioJS component for visualising sequences. - John Gómez; Rafael C. Jiménez (F1000Research, 2014)

wigExplorer, a BioJS component to visualise wig data. - Anil S. Thanki; Rafael C. Jiménez; Gemy G. Kaithakottil; Manuel Corpas; Robert P. Davey (F1000Research, 2014)

The MIntAct project - IntAct as a common curation platform for 11 molecular interaction databases. - Sandra E. Orchard; Mais G. Ammari; Bruno Aranda; Lionel Breuza; Leonardo Briganti; Fiona Broackes-Carter; Nancy H. Campbell; Gayatri Chavali; Carol Chen; Noemi del-Toro; Margaret J. Duesbury; Marine Dumousseau; et al. (Nucleic Acids Res., 2014)

Merging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study. - Jose M. Villaveces; Rafael C. Jiménez; Pablo Porras; Noemi del-Toro; Margaret J. Duesbury; Marine Dumousseau; Sandra E. Orchard; H. Choi; Peipei Ping; N. C. Zong; Manor Askenazi; Bianca Habermann; et al. (Database J. Biol. Databases Curation, 2015)

The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers. - Manuel Corpas; Rafael C. Jiménez; Erik Bongcam-Rudloff; Aidan Budd; Michelle D. Brazas; Pedro L. Fernandes; Bruno A. Gaëta; Celia W. G. van Gelder; Eija Korpelainen; Fran Lewitter; Annette McGrath; Daniel MacLean; et al. (Bioinform., 2015)

Top 10 metrics for life science software good practices. - Haydee Artaza; Neil P. Chue Hong; Manuel Corpas; Angel Corpuz; Rob W. W. Hooft; Rafael C. Jiménez; Brane Leskosek; Brett G. Olivier; Jan Stourac; Radka Svobodová Vareková; Thomas Van Parys; Daniel Vaughan (F1000Research, 2016)

Tools and data services registry: a community effort to document bioinformatics resources. - Jon C. Ison; Kristoffer Rapacki; Hervé Ménager; Matús Kalas; Emil Rydza; Piotr Chmura; Christian Anthon; Niall Beard; Karel Berka; Dan M. Bolser; Tim Booth; Anthony Bretaudeau; et al. (Nucleic Acids Res., 2016)

Bioschemas: From Potato Salad to Protein Annotation. - Alasdair J. G. Gray; Carole A. Goble; Rafael C. Jiménez (ISWC (Posters, Demos & Industry Tracks), 2017)

BioCIDER: a Contextualisation InDEx for biological Resources discovery. - Carlos Horro; Martin Cook; Teresa K. Attwood; Michelle D. Brazas; John M. Hancock; Patricia M. Palagi; Manuel Corpas; Rafael C. Jiménez (Bioinform., 2017)

BioContainers: an open-source and community-driven framework for software standardization. - Felipe da Veiga Leprevost; Björn A. Grüning; Saulo Aflitos; Hannes L. Röst; Julian Uszkoreit; Harald Barsnes; Marc Vaudel; Pablo A. Moreno; Laurent Gatto; Jonas Weber; Mingze Bai; Rafael C. Jiménez; et al. (Bioinform., 2017)

Four simple recommendations to encourage best practices in research software. - Rafael C. Jiménez; Mateusz Kuzak; Monther Alhamdoosh; Michelle Barker; Bérénice Batut; Mikael Borg; Salvador Capella-Gutiérrez; Neil P. Chue Hong; Martin Cook; Manuel Corpas; Madison Flannery; Leyla J. García; et al. (F1000Research, 2017)

The future of metabolomics in ELIXIR. - Merlijn N. van Rijswijk; Charlie Beirnaert; Christophe Caron; Marta Cascante; Victoria Dominguez Del Angel; Warwick B. Dunn; Timothy M. D. Ebbels; Franck Giacomoni; Alejandra N. González-Beltrán; Thomas Hankemeier; Kenneth Haug; Jose L. Izquierdo-García; et al. (F1000Research, 2017)

General guidelines for biomedical software development. - Luís Bastião Silva; Rafael C. Jiménez; Niklas Blomberg; José Luís Oliveira (F1000Research, 2017)

PIsCO: A Performance indicators framework for collection of bioinformatics resource metrics. - Haydee Artaza; John M. Hancock; Rafael C. Jiménez; Manuel Corpas (PeerJ Prepr., 2017)

Lesson Development for Open Source Software Best Practices Adoption. - Mateusz Kuzak; Jen Harrow; Rafael C. Jiménez; Paula Andrea Martínez; Fotis E. Psomopoulos; Radka Svobodová Vareková; Allegra Via (eScience, 2018)

Recommendations for the packaging and containerizing of bioinformatics software. - Björn A. Grüning; Olivier Sallou; Pablo A. Moreno; Felipe da Veiga Leprevost; Hervé Ménager; Dan Søndergaard; Hannes L. Röst; Timo Sachsenberg; Brian O'Connor; Fábio Madeira; Victoria Dominguez Del Angel; Michael R. Crusoe; et al. (F1000Research, 2018)

Community Organizations: Changing the Culture in Which Research Software Is Developed and Sustained. - Daniel S. Katz; Lois Curfman McInnes; David E. Bernholdt; Abigail Cabunoc Mayes; Neil P. Chue Hong; Jonah Duckles; Sandra Gesing; Michael A. Heroux; Simon Hettrick; Rafael C. Jiménez; Marlon E. Pierce; Belinda Weaver; et al. (Comput. Sci. Eng., 2019)

Ten simple rules to run a successful BioHackathon. - Leyla J. García; Erick Antezana; Alexander García Castro; Evan Bolton; Rafael C. Jiménez; Pjotr Prins; Juan M. Banda; Toshiaki Katayama (PLoS Comput. Biol., 2020)

Corrigendum to: Bioinformatics: scalability, capabilities and training in the data-driven era. - Maria Victoria Schneider; Rafael C. Jiménez (Briefings Bioinform., 2021)