SPEM: a parser for EMBL style flat file database entries. - Matthew R. Pocock; Tim J. P. Hubbard; Ewan Birney (Bioinform., 1998)

A browser for expression data. - Matthew R. Pocock; Tim J. P. Hubbard (Bioinform., 2000)

The Ensembl genome database project. - Tim J. P. Hubbard; Daniel Barker; Ewan Birney; Graham Cameron; Yuan Chen 007; Laura Clarke; Tony Cox 001; James A. Cuff; Val Curwen; Thomas A. Down; Richard Durbin; Eduardo Eyras; et al. (Nucleic Acids Res., 2002)

Taverna: a tool for the composition and enactment of bioinformatics workflows. - Thomas M. Oinn; Matthew Addis; Justin Ferris; Darren Marvin; Martin Senger; Robert Mark Greenwood; Tim Carver; Kevin Glover; Matthew R. Pocock; Anil Wipat; Peter Li (Bioinform., 2004)

A grid-based system for microbial genome comparison and analysis. - Yudong Sun; Anil Wipat; Matthew R. Pocock; Pete A. Lee; Paul Watson 001; Keith Flanagan; James T. Worthington (CCGRID, 2005)

Taverna: lessons in creating a workflow environment for the life sciences. - Thomas M. Oinn; Robert Mark Greenwood; Matthew Addis; Mahmut Nedim Alpdemir; Justin Ferris; Kevin Glover; Carole A. Goble; Antoon Goderis; Duncan Hull; Darren Marvin; Peter Li; Phillip W. Lord; et al. (Concurr. Comput. Pract. Exp., 2006)

Taverna: a tool for building and running workflows of services. - Duncan Hull; Katy Wolstencroft; Robert Stevens 001; Carole A. Goble; Matthew R. Pocock; Peter Li; Tom Oinn (Nucleic Acids Res., 2006)

Integration of constraints documented in SBML, SBO, and the SBML Manual facilitates validation of biological models. - Allyson L. Lister; Matthew R. Pocock; Anil Wipat (J. Integr. Bioinform., 2007)

Exploring Microbial Genome Sequences to Identify Protein Families on the Grid. - Yudong Sun; Anil Wipat; Matthew R. Pocock; P. A. Lee; Keith Flanagan; J. T. Worthington (IEEE Trans. Inf. Technol. Biomed., 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)

Performing statistical analyses on quantitative data in Taverna workflows: An example using R and maxdBrowse to identify differentially-expressed genes from microarray data. - Peter Li; Juan I. Castrillo; Giles Velarde; Ingo Wassink; Stian Soiland-Reyes; Stuart Owen; David Withers; Tom Oinn; Matthew R. Pocock; Carole A. Goble; Stephen G. Oliver; Douglas B. Kell (BMC Bioinform., 2008)

Clustering incorporating shortest paths identifies relevant modules in functional interaction networks. - Jennifer Hallinan; Matthew R. Pocock; Stephen G. Addinall; David A. Lydall; Anil Wipat (CIBCB, 2009)

Saint: a lightweight integration environment for model annotation. - Allyson L. Lister; Matthew R. Pocock; Morgan L. Taschuk; Anil Wipat (Bioinform., 2009)

Analysis and Visualisation of RDF Resources in Ondex. - Catherine Canevet; Artem Lysenko; Andrea Splendiani; Matthew R. Pocock; Christopher J. Rawlings (SWAT4LS, 2010)

The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. - Toshiaki Katayama; Kazuharu Arakawa; Mitsuteru Nakao; Keiichiro Ono; Kiyoko F. Aoki-Kinoshita; Yasunori Yamamoto; Atsuko Yamaguchi; Shuichi Kawashima; Hong-Woo Chun; Jan Aerts; Bruno Aranda; Lord H. Barboza; et al. (J. Biomed. Semant., 2010)

Annotation of SBML models through rule-based semantic integration. - Allyson L. Lister; Phillip W. Lord; Matthew R. Pocock; Anil Wipat (J. Biomed. Semant., 2010)

An integrated dataset for in silico drug discovery. - Simon J. Cockell; Jochen Weile; Phillip W. Lord; Claire Wipat; Dmytro Andriychenko; Matthew R. Pocock; Darren J. Wilkinson; Malcolm Young; Anil Wipat (J. Integr. Bioinform., 2010)

Customizable views on semantically integrated networks for systems biology. - Jochen Weile; Matthew R. Pocock; Simon J. Cockell; Phillip W. Lord; James M. Dewar; Eva-Maria Holstein; Darren J. Wilkinson; David A. Lydall; Jennifer Hallinan; Anil Wipat (Bioinform., 2011)

Microbase2.0: A Generic Framework for Computationally Intensive Bioinformatics Workflows in the Cloud. - Keith Flanagan; Sirintra Nakjang; Jennifer Hallinan; Colin Harwood; Robert P. Hirt; Matthew R. Pocock; Anil Wipat (J. Integr. Bioinform., 2012)

BacillOndex: An Integrated Data Resource for Systems and Synthetic Biology. - Goksel Misirli; Anil Wipat; Joseph Mullen; Katherine James; Matthew R. Pocock; Wendy Smith; Nick Allenby; Jennifer Hallinan (J. Integr. Bioinform., 2013)

Synthetic Biology Open Language (SBOL) Version 2.0.0. - Bryan Bartley; Jacob Beal; Kevin Clancy; Goksel Misirli; Nicholas Roehner; Ernst Oberortner; Matthew R. Pocock; Michael Bissell; Curtis Madsen; Tramy Nguyen; Zhen Zhang 006; John H. Gennari; et al. (J. Integr. Bioinform., 2015)

Annotation of rule-based models with formal semantics to enable creation, analysis, reuse and visualization. - Goksel Misirli; Matteo Cavaliere; William Waites; Matthew R. Pocock; Curtis Madsen; Owen Gilfellon; Ricardo Honorato-Zimmer; Paolo Zuliani; Vincent Danos; Anil Wipat (Bioinform., 2016)

Synthetic Biology Open Language (SBOL) Version 2.1.0. - Jacob Beal; Robert Sidney Cox III; Raik Grünberg; James Alastair McLaughlin; Tramy Nguyen; Bryan Bartley; Michael Bissell; Kiri Choi; Kevin Clancy; Chris Macklin; Curtis Madsen; Goksel Misirli; et al. (J. Integr. Bioinform., 2016)

Synthetic Biology Open Language (SBOL) Version 2.2.0. - Robert Sidney Cox III; Curtis Madsen; James Alastair McLaughlin; Tramy Nguyen; Nicholas Roehner; Bryan Bartley; Jacob Beal; Michael Bissell; Kiri Choi; Kevin Clancy; Raik Grünberg; Chris Macklin; et al. (J. Integr. Bioinform., 2018)

Synthetic Biology Open Language Visual (SBOL Visual) Version 2.0. - Robert Sidney Cox III; Curtis Madsen; James Alastair McLaughlin; Tramy Nguyen; Nicholas Roehner; Bryan Bartley; Swapnil Bhatia; Mike Bissell; Kevin Clancy; Thomas E. Gorochowski; Raik Grünberg; Augustin Luna; et al. (J. Integr. Bioinform., 2018)

Synthetic Biology Open Language (SBOL) Version 2.3. - Curtis Madsen; Ángel Goñi-Moreno; Umesh P; Zachary Palchick; Nicholas Roehner; Christian Atallah; Bryan Bartley; Kiri Choi; Robert Sidney Cox III; Thomas E. Gorochowski; Raik Grünberg; Chris Macklin; et al. (J. Integr. Bioinform., 2019)

Synthetic Biology Open Language Visual (SBOL Visual) Version 2.1. - Curtis Madsen; Ángel Goñi-Moreno; Zachary Palchick; Umesh P; Nicholas Roehner; Bryan Bartley; Swapnil Bhatia; Shyam Bhakta; Mike Bissell; Kevin Clancy; Robert Sidney Cox III; Thomas E. Gorochowski; et al. (J. Integr. Bioinform., 2019)

Synthetic biology open language visual (SBOL visual) version 2.2. - Hasan Baig; Pedro Fontanarrosa; Vishwesh Kulkarni 002; James Alastair McLaughlin; Prashant Vaidyanathan; Bryan Bartley; Swapnil Bhatia; Shyam Bhakta; Michael Bissell; Kevin Clancy; Robert Sidney Cox III; Ángel Goñi-Moreno; et al. (J. Integr. Bioinform., 2020)

Synthetic biology open language visual (SBOL Visual) version 2.3. - Hasan Baig; Pedro Fontanarossa; Vishwesh Kulkarni 002; James Alastair McLaughlin; Prashant Vaidyanathan; Bryan Bartley; Shyam Bhakta; Swapnil Bhatia; Mike Bissell; Kevin Clancy; Robert Sidney Cox III; Ángel Goñi-Moreno; et al. (J. Integr. Bioinform., 2021)

Integration of probabilistic functional networks without an external Gold Standard. - Katherine James; Aoesha Alsobhe; Simon J. Cockell; Anil Wipat; Matthew R. Pocock (BMC Bioinform., 2022)