Matthew R. Pocock

According to our database, Matthew R. Pocock authored at least 30 papers between 1998 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2022

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

2021

Synthetic biology open language visual (SBOL Visual) version 2.3.

Hasan Baig, Pedro Fontanarossa, Vishwesh Kulkarni, James Alastair McLaughlin, Prashant Vaidyanathan, Bryan Bartley, Shyam Bhakta, Swapnil Bhatia, Mike Bissell, Kevin Clancy, Robert Sidney Cox III, Ángel Goñi-Moreno, Thomas E. Gorochowski, Raik Grünberg, Jihwan Lee, Augustin Luna, Curtis Madsen, Goksel Misirli, Tramy Nguyen, Nicolas Le Novère, Zachary Palchick, Matthew R. Pocock, Nicholas Roehner, Herbert M. Sauro, James Scott-Brown, John T. Sexton, Guy-Bart Stan, Jeffrey J. Tabor, Logan Terry, Marta Vazquez Vilar, Christopher A. Voigt, Anil Wipat, David Zong, Zach Zundel, Jacob Beal, Chris J. Myers

J. Integr. Bioinform., 2021

2020

Synthetic biology open language visual (SBOL visual) version 2.2.

Hasan Baig, Pedro Fontanarrosa, Vishwesh Kulkarni, James Alastair McLaughlin, Prashant Vaidyanathan, Bryan Bartley, Swapnil Bhatia, Shyam Bhakta, Michael Bissell, Kevin Clancy, Robert Sidney Cox III, Ángel Goñi-Moreno, Thomas E. Gorochowski, Raik Grünberg, Augustin Luna, Curtis Madsen, Goksel Misirli, Tramy Nguyen, Nicolas Le Novère, Zachary Palchick, Matthew R. Pocock, Nicholas Roehner, Herbert M. Sauro, James Scott-Brown, John T. Sexton, Guy-Bart Stan, Jeffrey J. Tabor, Marta Vazquez Vilar, Christopher A. Voigt, Anil Wipat, David Zong, Zach Zundel, Jacob Beal, Chris J. Myers

J. Integr. Bioinform., 2020

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, Raik Grünberg, Augustin Luna, James Alastair McLaughlin, Tramy Nguyen, Nicolas Le Novère, Matthew R. Pocock, Herbert M. Sauro, James Scott-Brown, John T. Sexton, Guy-Bart Stan, Jeffrey J. Tabor, Christopher A. Voigt, Zach Zundel, Chris J. Myers, Jacob Beal, Anil Wipat

J. Integr. Bioinform., 2019

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, James Alastair McLaughlin, Xianwei Meng, Tramy Nguyen, Matthew R. Pocock, Meher Samineni, James Scott-Brown, Ysis Tarter, Michael Zhang, Zhen Zhang, Zach Zundel, Jacob Beal, Michael Bissell, Kevin Clancy, John H. Gennari, Goksel Misirli, Chris J. Myers, Ernst Oberortner, Herbert M. Sauro, Anil Wipat

J. Integr. Bioinform., 2019

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, Nicolas Le Novère, Matthew R. Pocock, Herbert M. Sauro, John T. Sexton, Guy-Bart Stan, Jeffrey J. Tabor, Christopher A. Voigt, Zach Zundel, Chris J. Myers, Jacob Beal, Anil Wipat

J. Integr. Bioinform., 2018

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, Goksel Misirli, Ernst Oberortner, Matthew R. Pocock, Meher Samineni, Michael Zhang, Zhen Zhang, Zach Zundel, John H. Gennari, Chris J. Myers, Herbert M. Sauro, Anil Wipat

J. Integr. Bioinform., 2018

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, Ernst Oberortner, Matthew R. Pocock, Nicholas Roehner, Meher Samineni, Michael Zhang, Zhen Zhang, Zach Zundel, John H. Gennari, Chris J. Myers, Herbert M. Sauro, Anil Wipat

J. Integr. Bioinform., 2016

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

2015

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, John H. Gennari, Chris J. Myers, Anil Wipat, Herbert M. Sauro

J. Integr. Bioinform., 2015

2013

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

2012

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

2011

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

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

Annotation of SBML models through rule-based semantic integration.

Allyson L. Lister, Phillip W. Lord, Matthew R. Pocock, Anil Wipat

J. Biomed. Semant., 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, Raoul Jean Pierre Bonnal, Richard M. Bruskiewich, Jan Christian Bryne, José María Fernández, Akira Funahashi, Paul M. K. Gordon, Naohisa Goto, Andreas Groscurth, Alex Gutteridge, Richard C. G. Holland, Yoshinobu Kano, Edward A. Kawas, Arnaud Kerhornou, Eri Kibukawa, Akira R. Kinjo, Michael Kuhn, Hilmar Lapp, Heikki Lehväslaiho, Hiroyuki Nakamura, Yasukazu Nakamura, Tatsuya Nishizawa, Chikashi Nobata, Tamotsu Noguchi, Thomas M. Oinn, Shinobu Okamoto, Stuart Owen, Evangelos Pafilis, Matthew R. Pocock, Pjotr Prins, René Ranzinger, Florian Reisinger, Lukasz Salwínski, Mark J. Schreiber, Martin Senger, Yasumasa Shigemoto, Daron M. Standley, Hideaki Sugawara, Toshiyuki Tashiro, Oswaldo Trelles, Rutger A. Vos, Mark D. Wilkinson, William S. York, Christian M. Zmasek, Kiyoshi Asai, Toshihisa Takagi

J. Biomed. Semant., 2010

Analysis and Visualisation of RDF Resources in Ondex.

Catherine Canevet, Artem Lysenko, Andrea Splendiani, Matthew R. Pocock, Christopher J. Rawlings

Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences, 2010

2009

Saint: a lightweight integration environment for model annotation.

Allyson L. Lister, Matthew R. Pocock, Morgan L. Taschuk, Anil Wipat

Bioinform., 2009

Clustering incorporating shortest paths identifies relevant modules in functional interaction networks.

Jennifer Hallinan, Matthew R. Pocock, Stephen G. Addinall, David A. Lydall, Anil Wipat

Proceedings of the 2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2009

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

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

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

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

2006

Taverna: a tool for building and running workflows of services.

Duncan Hull, Katy Wolstencroft, Robert Stevens, Carole A. Goble, Matthew R. Pocock, Peter Li, Tom Oinn

Nucleic Acids Res., 2006

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, Matthew R. Pocock, Martin Senger, Robert Stevens, Anil Wipat, Chris Wroe

Concurr. Comput. Pract. Exp., 2006

2005

A grid-based system for microbial genome comparison and analysis.

Yudong Sun, Anil Wipat, Matthew R. Pocock, Pete A. Lee, Paul Watson, Keith Flanagan, James T. Worthington

Proceedings of the 5th International Symposium on Cluster Computing and the Grid (CCGrid 2005), 2005

2004

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

2002

The Ensembl genome database project.

Tim J. P. Hubbard, Daniel Barker, Ewan Birney, Graham Cameron, Yuan Chen, Laura Clarke, Tony Cox, James A. Cuff, Val Curwen, Thomas A. Down, Richard Durbin, Eduardo Eyras, James G. R. Gilbert, Martin Hammond, Lukasz Huminiecki, Arek Kasprzyk, Heikki Lehväslaiho, Philip Lijnzaad, Craig Melsopp, Emmanuel Mongin, Roger Pettett, Matthew R. Pocock, Simon C. Potter, Alistair G. Rust, Esther Schmidt, Stephen M. J. Searle, Guy Slater, James A. Smith, William Spooner, Arne Stabenau, Jim Stalker, Elia Stupka, Abel Ureta-Vidal, Imre Vastrik, Michele E. Clamp

Nucleic Acids Res., 2002

2000

A browser for expression data.

Matthew R. Pocock, Tim J. P. Hubbard

Bioinform., 2000

1998

SPEM: a parser for EMBL style flat file database entries.

Matthew R. Pocock, Tim J. P. Hubbard, Ewan Birney

Bioinform., 1998