Locke2005_CircadianClock_tanh - PLM_8, version 1

This version is derived from a model from the article: <strong>Extension of a genetic network model by iterative experimentation and mathematical analysis. </strong>Locke JC, Southern MM, Kozma-Bognár L, Hibberd V, Brown PE, Turner MS, Millar AJ <em>Mol. Syst. Biol. </em>2005; 1: 2005.0013 <a href="http://www.ncbi.nlm.nih.gov/pubmed/16729048">16729048</a>,	 SBML model of the interlocked feedback loop network	The model describes the circuit depicted in Fig. 4 and reproduces the simulations in Figure 5A and 5B. It provides initial conditions, parameter values and rules for the production rates of the following species: LHY mRNA (cLm), cytoplasmic LHY (cLc), nuclear LHY (cLn), TOC1 mRNA (cTm), cytoplasmic TOC1 (cTc), nuclear TOC1 (cTn),X mRNA (cXm), cytoplasmic X (cXc), nuclear X (cXn), Y mRNA (cYm), cytoplasmic Y (cYc), nuclear Y (cYn), nuclear P (cPn).	Compared to the original version in Biomodels database, <a href="http://www.ebi.ac.uk/biomodels/models-main/publ/BIOMD0000000055.xml.origin"><i>BIOMD0000000055.xml.origin</i></a>, this version uses a better description of the light-dark cycle, by Drs. Ozgur Akman and Kevin Stratford. The model contains a candidate for a community-standard cyclic function, which uses tanh functions to achieve rapid yet numerically continuous steps from light to darkness, rather than discrete events in SBML.<br><br><strong>Related Publications</strong><br>Locke J.C.W., Southern M.M., Kozma-Bognar L., Hibberd V., Brown P.E., Turner M.S., Millar A.J. (2005). Extension of a genetic network model by iterative experimentation and mathematical analysis.. Mol. Syst. Biol.. Retrieved from: http://www.nature.com/msb/journal/v1/n1/full/msb4100018.html<br><br><strong>Originally submitted to PLaSMo on 2010-05-05 14:54:28</strong>

SEEK ID: https://fairdomhub.org/assays/868

Modelling Analysis

BioData SynthSys

Projects: Millar group, PlaSMo model repository

Investigation: Millar, Andrew (ex-PlaSMo models)

Study: Locke2005_CircadianClock_tanh - PLM_8

Assay position:

Biological problem addressed: Gene Regulatory Network

Organisms: No organisms

help Creators and Submitter
Additional credit

Andrew Millar


Views: 1286

Created: 10th Jan 2019 at 17:41

Last updated: 22nd Jan 2019 at 18:20

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