Salazar Photoperiodism Model with T6P - PLM_82, version 1

This is the SimileXML for the Salazar model linked to the T6P/TPS pathway (Wahl et al. Science 2013). The Simile version of this model and the parameter file are also attached here. Time series data of T6P and FT mRNA for Col wild type and tps1 mutant from Fig. 1 in Wahl et al were used to re-optimise Bco, KCO, kT6P and vT6P (which replaces VCO). Note: This set of parameter values has only been optimised and tested for a 16:8 light:dark cycle, and the initial values in the Simile model are for 12:12.  Instructions to run the model in Simile 1.       Save all the files into the same folder. 2.       Copy and paste the attached ‘’ file in the following folder:            Program File > Simile6.0 (or other software version)> Functions 3.       Download the attached Simile file or import the XML into Simile:            a.       File > Import > XML Model Description 4.       To run the model:            a.       Model > Run or click on the ‘Play’ (triangle) button 5.       When you run the model for the first time, you will be prompted to load the parameter file. To do so:           a.       Load the ‘Salazar model.spf’ file at the TOP LEVEL 6.       The time unit and time step also need to be adjusted as follows:            a.       The time step can be set in the run display window. The time step #1 should be set to 0.001            b.      The time unit should be changed to ‘hour’, which can be done in the ‘Run settings’ tab in the run display window

Originally submitted to PLaSMo on 2014-03-18 13:27:16


Modelling Analysis

BioData SynthSys

Projects: PlaSMo model repository

Investigation: Hoon, Yin

Study: Salazar Photoperiodism Model with T6P - PLM_82

Biological problem addressed: Gene Regulatory Network

Organisms: No organisms

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Yin Hoon

Views: 17

Created: 10th Jan 2019 at 17:41

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