Darren J. Wilkinson

Publication Activity (10 Years)

Years Active: 1998-2023
Publications (10 Years): 17

Top Topics

Systems Biology

Markup Language

Poisson Process

Top Venues

J. Integr. Bioinform.

J. Comput. Sci.

Publications

Lorna J. Richardson, Ben Allen, Germana Baldi, Martin Beracochea, Maxwell L. Bileschi, Tony Burdett, Josephine Burgin, Juan Caballero, Guy Cochrane, Lucy J. Colwell, Tom Curtis, Alejandra Escobar-Zepeda, Tatiana A. Gurbich, Varsha Kale, Anton I. Korobeynikov, Shriya Raj, Alexander b Rogers, Ekaterina A. Sakharova, Santiago Sanchez, Darren J. Wilkinson, Robert D. Finn
MGnify: the microbiome sequence data analysis resource in 2023. Nucleic Acids Res. 51 (D1) (2023)
Naomi E. Hannaford, Sarah E. Heaps, Tom M. W. Nye, Thomas P. Curtis, Ben Allen, Andrew Golightly, Darren J. Wilkinson
A sparse Bayesian hierarchical vector autoregressive model for microbial dynamics in a wastewater treatment plant. Comput. Stat. Data Anal. 179 (2023)
Lucian P. Smith, Stuart L. Moodie, Frank T. Bergmann, Colin S. Gillespie, Sarah M. Keating, Matthias König, Chris J. Myers, Maciek J. Swat, Darren J. Wilkinson, Michael Hucka
Systems Biology Markup Language (SBML) Level 3 Package: Distributions, Version 1, Release 1. J. Integr. Bioinform. 17 (2-3) (2020)
Clement Lee, Darren J. Wilkinson
A review of stochastic block models and extensions for graph clustering. Appl. Netw. Sci. 4 (1) (2019)
Michael Hucka, Frank T. Bergmann, Claudine Chaouiya, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Matthias König, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Rahuman S. Malik-Sheriff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson, Fengkai Zhang
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core Release 2. J. Integr. Bioinform. 16 (2) (2019)
Clement Lee, Darren J. Wilkinson
A Review of Stochastic Block Models and Extensions for Graph Clustering. CoRR (2019)
O. K. Oyebamiji, Darren J. Wilkinson, B. Li, Pahala Gedara Jayathilake, Paolo Zuliani, Thomas P. Curtis
Bayesian emulation and calibration of an individual-based model of microbial communities. J. Comput. Sci. 30 (2019)
Lauren Roberts, Peter Michalák, Sarah Heaps, Michael Trenell, Darren J. Wilkinson, Paul Watson
Automating the Placement of Time Series Models for IoT Healthcare Applications. eScience (2018)
Jonathan Law, Darren J. Wilkinson
Composable models for online Bayesian analysis of streaming data. Stat. Comput. 28 (6) (2018)
Clement Lee, Darren J. Wilkinson
A Social Network Analysis of Articles on Social Network Analysis. CoRR (2018)
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. J. Integr. Bioinform. 15 (1) (2018)
Alex L. Mitchell, Maxim Scheremetjew, Hubert Denise, Simon C. Potter, Aleksandra Tarkowska, Matloob Qureshi, Gustavo A. Salazar, Sebastien Pesseat, Miguel A. Boland, Fiona M. I. Hunter, Petra ten Hoopen, Blaise T. F. Alako, Clara Amid, Darren J. Wilkinson, Thomas P. Curtis, Guy Cochrane, Robert D. Finn
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies. Nucleic Acids Res. 46 (Database-Issue) (2018)
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core. J. Integr. Bioinform. 15 (1) (2018)
Clement Lee, Darren J. Wilkinson
A hierarchical model of non-homogeneous Poisson processes for Twitter retweets. CoRR (2018)
Clement Lee, Andrew Garbett, Darren J. Wilkinson
A network epidemic model for online community commissioning data. Stat. Comput. 28 (4) (2018)
O. K. Oyebamiji, Darren J. Wilkinson, Pahala Gedara Jayathilake, Thomas P. Curtis, S. P. Rushton, B. Li, P. Gupta
Gaussian process emulation of an individual-based model simulation of microbial communities. J. Comput. Sci. 22 (2017)
Clement Lee, Andrew Garbett, Darren J. Wilkinson
A Network Epidemic Model for Online Community Commissioning Data. CoRR (2017)
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson
Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions. J. Integr. Bioinform. 12 (2) (2015)
Jamie Owen, Darren J. Wilkinson, Colin S. Gillespie
Scalable inference for Markov processes with intractable likelihoods. Stat. Comput. 25 (1) (2015)
Michael Hucka, Frank T. Bergmann, Stefan Hoops, Sarah M. Keating, Sven Sahle, James C. Schaff, Lucian P. Smith, Darren J. Wilkinson
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. J. Integr. Bioinform. 12 (2) (2015)
Jonathan Heydari, Conor Lawless, David A. Lydall, Darren J. Wilkinson
Fast Bayesian parameter estimation for stochastic logistic growth models. Biosyst. 122 (2014)
Peter Milner, Colin S. Gillespie, Darren J. Wilkinson
Moment closure based parameter inference of stochastic kinetic models. Stat. Comput. 23 (2) (2013)
Jochen Weile, Katherine James, Jennifer Hallinan, Simon J. Cockell, Phillip W. Lord, Anil Wipat, Darren J. Wilkinson
Bayesian integration of networks without gold standards. Bioinform. 28 (11) (2012)
Mark Mc Auley, Darren J. Wilkinson, Janette Jones, Thomas B. L. Kirkwood
A whole-body mathematical model of cholesterol metabolism and its age-associated dysregulation. BMC Syst. Biol. 6 (2012)
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
Customizable views on semantically integrated networks for systems biology. Bioinform. 27 (9) (2011)
Conor Lawless, Darren J. Wilkinson, Alexander Young, Stephen G. Addinall, David A. Lydall
Colonyzer: automated quantification of micro-organism growth characteristics on solid agar. BMC Bioinform. 11 (2010)
Yuhui Chen, Conor Lawless, Colin S. Gillespie, Jake Wu, Richard J. Boys, Darren J. Wilkinson
CaliBayes and BASIS: integrated tools for the calibration, simulation and storage of biological simulation models. Briefings Bioinform. 11 (3) (2010)
Simon J. Cockell, Jochen Weile, Phillip W. Lord, Claire Wipat, Dmytro Andriychenko, Matthew R. Pocock, Darren J. Wilkinson, Malcolm Young, Anil Wipat
An integrated dataset for in silico drug discovery. J. Integr. Bioinform. 7 (3) (2010)
Howsun Jow, Madhuchhanda Bhattacharjee, Richard J. Boys, Darren J. Wilkinson
The Integration of Genetic Maps Using Bayesian Inference. J. Comput. Biol. 17 (6) (2010)
Richard J. Boys, Darren J. Wilkinson, Thomas B. L. Kirkwood
Bayesian inference for a discretely observed stochastic kinetic model. Stat. Comput. 18 (2) (2008)
Thomas W. Evans, Colin S. Gillespie, Darren J. Wilkinson
The SBML discrete stochastic models test suite. Bioinform. 24 (2) (2008)
Andrew Golightly, Darren J. Wilkinson
Bayesian inference for nonlinear multivariate diffusion models observed with error. Comput. Stat. Data Anal. 52 (3) (2008)
Darren J. Wilkinson
Bayesian methods in bioinformatics and computational systems biology. Briefings Bioinform. 8 (2) (2007)
Andrew Golightly, Darren J. Wilkinson
Bayesian Sequential Inference for Stochastic Kinetic Biochemical Network Models. J. Comput. Biol. 13 (3) (2006)
Colin S. Gillespie, Darren J. Wilkinson, Carole J. Proctor, Daryl P. Shanley, Richard J. Boys, Thomas B. L. Kirkwood
Tools for the SBML Community. Bioinform. 22 (5) (2006)
Andrew Golightly, Darren J. Wilkinson
Bayesian sequential inference for nonlinear multivariate diffusions. Stat. Comput. 16 (4) (2006)
Colin S. Gillespie, Darren J. Wilkinson, Daryl P. Shanley, Carole J. Proctor, Richard J. Boys, Thomas B. L. Kirkwood
BASIS: an internet resource for network modelling. J. Integr. Bioinform. 3 (2) (2006)
Richard J. Boys, Daniel Henderson, Thomas B. L. Kirkwood, Darren J. Wilkinson, W. Eryk Wolski
CaliBayes: Integration of GRID based simulation and data resources for Bayesian calibration of biological models. BMC Bioinform. 6 (S-3) (2005)
Mark Mc Auley, Janette Jones, Darren J. Wilkinson, Thomas B. L. Kirkwood
Modelling Lipid Metabolism to Improve Healthy Ageing. BMC Bioinform. 6 (S-3) (2005)
Darren J. Wilkinson, Stephen K. H. Yeung
A sparse matrix approach to Bayesian computation in large linear models. Comput. Stat. Data Anal. 44 (3) (2004)
Darren J. Wilkinson, Stephen K. H. Yeung
Conditional simulation from highly structured Gaussian systems, with application to blocking-MCMC for the Bayesian analysis of very large linear models. Stat. Comput. 12 (3) (2002)
Michael M. Goldstein, Darren J. Wilkinson
Restricted Prior Inference for Complex Uncertainty Structures. Ann. Math. Artif. Intell. 32 (1-4) (2001)
Michael M. Goldstein, Darren J. Wilkinson
Bayes linear analysis for graphical models: The geometric approach to local computation and interpretive graphics. Stat. Comput. 10 (4) (2000)
Darren J. Wilkinson
An Object-Oriented Approach to Local Computation in Bayes Linear Belief Networks. COMPSTAT (1998)