Past projects

• "Modelling, Inference and Analysis for Biological Systems up to the Cellular Level", BBSRC Research Equipment Grant (David Gilbert, PI), December 2005.

• "Targetted Manipulation of Signal Transduction Pathways based on In Silico Modelling"
  Faculty of Biomedical and Life Sciences, University of Glasgow and Cyclacel. Amelie Gourmand (PhD student), Walter Kolch (PI). PhD Industrial Studentship, funded by Scottish Enterprise through their Biotechnology programme, 36 months from January 2004.

• SB(R)Net -- Systems Biology Regional Network. Partner institutions: University of Ulster (Co-ordinator), University of Liverpool, University of Wales -- Aberystwyth, University of Wales -- Bangor, Queen's University Belfast, University College Dublin, University of Glasgow.

• "BPS: A Software Tool for the Simulation and Analysis of Biochemical Networks"
  David Gilbert (PI), Muffy Calder, Walter Kolch, Keith van Rijsbergen:
  Funding is for 4 years provided by the Department of Trade and Industry UK, under the Beacon scheme.
  Partners: Bioinformatics Research Centre - Department of Computing Science and the Beatson Institute, University of Glasgow. The industrial partner is MD Biosciences. Project presentation slideshow: HTML, PDF

• "Graph based methods for the analysis of biochemical structures" Juris Viksna, EPSRC Visiting Research Fellow, (David Gilbert, PI), April 2005 for 1 year

• Prof Des Higham and David Gilbert's PhD students
  • Computational Graph Theory for Bioinformatics, Julie Morrison , Synergy funded Research Student project

• "Disease Prediction, Differentiation and Biomarker Identification from Proteomic Profiling"
  funded by Mosaiques Diagnostics & Therapeutics AG. Mark Girolami

• "Probalistic reconstruction of signalling pathways and identification of novel transcription factors", Mark Girolami, MRC discipline hopping award, April 2005, 8 months.

• "BRIDGES: BioMedical Research Informatics Delivered by Grid Enabled Services"
  EPSRC, UK e-Science Core Programme project, 23 months. David Gilbert (P.I.), Malcolm Atkinson (P.I.), Richard Sinnott (Project manager), and Ela Hunt.

• "Inter-residue Interactions in Protein Structures"
  Bioinformatics Research Centre, University of Glasgow and the Computational Biology Research Center, Tokyo, Japan. David Gilbert (PI), Pawel Herzyk, Makiko Suwa and Michael Gromiha, funded by the DAIWA Anglo-Japanese Foundation, 12 months from 30 October 2003

• "XTECT project (Xml TEchnologies for the discovery of Cancer Treatments)"
  Ela Hunt, P.I., in collaboration with J. Wilson of Strathclyde University and B. Gusterson and Torsten Stein of the Division of Cancer Sciences and Molecular Pathology, University of Glasgow. Funded by the Carnegie Trust for the Univeristies of Scotland and the Synergy Initiative.

• Large scale data integration and the use of cross-genome mapping methods in heart disease genetics and therapy MRC Special Research Training Fellowship in Bioinformatics, Ela Hunt (PI), 4 years from 1 October 2001.
• Mallika Veeramalai, , PhD student, "Incorporating sequence and interaction information in topological models of protein structure". October 2001 - September 2005

• Ali Al-Shahib, , PhD student "Assigning function to genes using a variety of data sources by combining predications with varying levels of uncertainty" . October 2001 - June 2005

• "Representation and Exploitation of Diverse Biological Evidence in a Systems Biology Context"
  Rainer Breitling: Personal Research Fellowship funded by the Caledonian Research Foundation. April 2005.

• "Automatic extraction of rules for protein classification"
  Juris Viksna: funded by the Wellcome Trust, and the University of Glasgow.

• "Functional Genomics of NutriensTransport in Arabidopsis; Bioinformatics Approach"
  Anna Amtmann, Pawel Herzyk, Ernst Wit and Rainer Breitling BBSRC, April 2003 for 2 years

• " Patterns, functions and structures on a protein topology database"
  initially funded by the BBSRC/EPSRC Bioinformatics Initiative, 2 years from January 2001, thereafter funded by the University of Glasgow for 2 years. David Gilbert (PI) and Gilleain Torrance. Rated A ("Very high class work that has produce results of considerable scientific importance")

• Andrew Jones, MRC PhD studentship: Database technologies for large proteomics data sets. Collaboration with Dr Jonathan Wastling, IBLS.
• Aik Choon Tan, PhD student, "Machine learning of protein structure and function"

• "Engineering Cell Form and Function with Nanometric Surfaces"
  Mathis Riehle, David Gilbert, Chris Wilkinson and Stephen Yarwood, a collaboration between the Centre for Cell Engineering and the Bioinformatics Research Centre. Funded by the Royal Society Wolfson Foundation Laboratory Refurbishment Scheme, February 2003 for 1 year

• "SAILS: Self-Adjusting Indexes for Large Sequences"
  Malcolm Atkinson (PI) and Nigel Harding. Funded by the EPSRC, 30 months from August 2001.

• "Application of constraint satisfaction for the analysis of biochemical networks"
  Yves Deville and David Gilbert, September 2002 for 1 year, funded by the EPSRC

• "Structural patterns in the composite regulatory regions of genomes"
  Olivier Sand: Funded by a Marie Curie Research Fellowship, and the University of Glasgow.