This model is termed P2011 and derives from the article: The clock gene circuit in Arabidopsis includes a repressilator with additional feedback loops. Alexandra Pokhilko, Aurora Piñas Fernández, Kieron D Edwards, Megan M Southern, Karen J Halliday & Andrew J Millar Mol. Syst. Biol. 2012; 8: 574, submitted 9 Aug 2011 and published 6 March 2012. Link Link to Supplementary Information, including equations. Minor errors in the published Supplementary Information are described in a file attached to version 1 of this model (the published SBML is correct). The model describes the circuit depicted in Fig. 1 of the paper (GIF attached). It updates the Pokhilko et al. 2010 model (termed P2010), PLM_6, by including:
- the Evening Complex genes (ELF4, ELF3, LUX),
- light-regulated degradation of ELF3 by COP1,
- TOC1 as a repressor rather than an activator of LHY/CCA1.
Alexandra Pokhilko, Aurora Piñas Fernández, Kieron D Edwards, Megan M Southern, Karen J Halliday & Andrew J Millar (2012). The clock gene circuit in Arabidopsis includes a repressilator with additional feedback loops.. Mol. Syst. Biol. 8: 574.. Retrieved from: http://www.nature.com/msb/journal/v8/n1/synopsis/msb20126.html
Version 2 of the model includes the StepFunction. Note that we have not yet removed the original light function parameter names, they are now non-functional.
2012-06-01 17:29:46 3 amillar2 firstname.lastname@example.org
The SBML for this version uses the StepFunction (as in Adams et al. J. Biol Rhythms 2012) to represent the light-dark cycle. It has parameter name Lightstep, ID step1. Parameter name L, which is used in the model reactions, is assigned the value of Lightstep.
Note version 3 has a Copasi file attached.
Originally submitted to PLaSMo on 2012-03-07 12:15:12
Created: 10th Jan 2019 at 17:40
Last updated: 22nd Jan 2019 at 18:17