The MCISB develops experimental and computational technologies in systems biology. It employs 9.5 multidisciplinary people to develop kinetic models of yeast metabolism using genome-scale SBML models annotated with MIRIAM standards. The modeling process involves identifying pathways to model, associating models with functions and parameter values, and analyzing/simulating resulting models.
8. Enzyme kinetics Quantitative metabolomics Quantitative proteomics SBML Model Parameters (K M , k cat ) Variables (metabolite, protein concentrations) PRIDE XML MeMo SABIO-RK Web service KRDB Web service
14. QconCAT PrideWizard eXist database PRIDE XML Identify QconCAT Pride Wizard Quantify Format Upload Web / web service Browser Mascot PRIDE XML PRIDE Converter mzData Pride
30. Qualitative model construction Input: list of ORFs Output: SBML file 1. Get reaction info 3. Create species 2. Create compartments 4. Create reactions
36. COPASI web service Design and Architecture of Web Services for Simulation of Biochemical Systems. Dada JO, Mendes P. Data Integration in the Life Sciences, Manchester, UK (2009).