Stuart Aitken

Summary

Affiliation: University of Edinburgh
Country: UK

Publications

  1. pmc A rule-based kinetic model of RNA polymerase II C-terminal domain phosphorylation
    Stuart Aitken
    MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh EH4 2XU, UK
    J R Soc Interface 10:20130438. 2013
  2. pmc Nested sampling for parameter inference in systems biology: application to an exemplar circadian model
    Stuart Aitken
    MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh EH4 2XU, UK
    BMC Syst Biol 7:72. 2013
  3. pmc Processivity and coupling in messenger RNA transcription
    Stuart Aitken
    Centre for Systems Biology, University of Edinburgh, Edinburgh, United Kingdom
    PLoS ONE 5:e8845. 2010
  4. pmc Modelling reveals kinetic advantages of co-transcriptional splicing
    Stuart Aitken
    Centre for Systems Biology, University of Edinburgh, Edinburgh, United Kingdom
    PLoS Comput Biol 7:e1002215. 2011
  5. pmc Dizzy-Beats: a Bayesian evidence analysis tool for systems biology
    Stuart Aitken
    MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh EH4 2XU, UK, School of Informatics, University of Edinburgh, Edinburgh EH8 9AB, UK, Department of Pediatrics, University of California San Diego, La Jolla, CA 92093, USA, Centre for Systems, Dynamics and Control, College of Engineering, Mathematics and Physical Sciences, University of Exeter, Exeter EX4 4QF, UK
    Bioinformatics 31:1863-5. 2015
  6. pmc EnzML: multi-label prediction of enzyme classes using InterPro signatures
    Luna De Ferrari
    Computational Systems Biology and Bioinformatics, School of Informatics, University of Edinburgh, Informatics Forum, 10 Crichton Street, UK
    BMC Bioinformatics 13:61. 2012

Detail Information

Publications6

  1. pmc A rule-based kinetic model of RNA polymerase II C-terminal domain phosphorylation
    Stuart Aitken
    MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh EH4 2XU, UK
    J R Soc Interface 10:20130438. 2013
    ..On this basis, we synthesize the available data to create a kinetic model of the action of the known kinases and phosphatases to resolve the phosphorylation pathways and their kinetics. ..
  2. pmc Nested sampling for parameter inference in systems biology: application to an exemplar circadian model
    Stuart Aitken
    MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh EH4 2XU, UK
    BMC Syst Biol 7:72. 2013
    ....
  3. pmc Processivity and coupling in messenger RNA transcription
    Stuart Aitken
    Centre for Systems Biology, University of Edinburgh, Edinburgh, United Kingdom
    PLoS ONE 5:e8845. 2010
    ..These processes include elongation, which has a minimum time for completion and processing that is not captured in the model...
  4. pmc Modelling reveals kinetic advantages of co-transcriptional splicing
    Stuart Aitken
    Centre for Systems Biology, University of Edinburgh, Edinburgh, United Kingdom
    PLoS Comput Biol 7:e1002215. 2011
    ....
  5. pmc Dizzy-Beats: a Bayesian evidence analysis tool for systems biology
    Stuart Aitken
    MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh EH4 2XU, UK, School of Informatics, University of Edinburgh, Edinburgh EH8 9AB, UK, Department of Pediatrics, University of California San Diego, La Jolla, CA 92093, USA, Centre for Systems, Dynamics and Control, College of Engineering, Mathematics and Physical Sciences, University of Exeter, Exeter EX4 4QF, UK
    Bioinformatics 31:1863-5. 2015
    ..Parameter inference yields important information on the extent to which the data and the model constrain parameter values...
  6. pmc EnzML: multi-label prediction of enzyme classes using InterPro signatures
    Luna De Ferrari
    Computational Systems Biology and Bioinformatics, School of Informatics, University of Edinburgh, Informatics Forum, 10 Crichton Street, UK
    BMC Bioinformatics 13:61. 2012
    ..Manual annotation of enzymatic functions cannot keep up with automatic genome sequencing. In this work we explore the capacity of InterPro sequence signatures to automatically predict enzymatic function...