Rethinking Transcriptional Activation in the Arabidopsis Circadian Clock

SynthSys is the University of Edinburgh's research organisation in interdisciplinary, Synthetic and Systems Biology, founded in 2012 as the successor to the Centre for Systems Biology at Edinburgh (CSBE).

What is PlaSMo? PlaSMo stands for Plant Systems-biology Modelling Ensuring the achievements of yesterday's Mathematical Modellers will be available for the Systems Biologists of tomorrow.

Our aims

To identify plant mathematical models useful to the UK plant systems biology community, which are currently in a variety of legacy formats and in danger of being lost

To represent these models in a declarative XML-based format, which is closer to the systems biology standard SBML To evaluate the behaviour ...

Originally submitted model file for PLaSMo accession ID PLM_1030, version 1

From published files, Uriel Urquiza created SBML models with all 8 parameter sets published, and versions of F2014.1 to simulate multiple clock mutants, using SloppyCell

F2014.1.2 SBML file including Stepfunction imported back into Copasi v4.8

F2014.1.1 becomes the published version, with SBML file originally created from SloppyCell by Uriel Urquiza - see separate file. then Andrew Millar converted into SBML L2V4 in Copasi and added ISSF for light input, using SBSI Stepfunction editor (see Adams et al. 2011 J Biol Rhythms).