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Arabidopsis_clock_P2011 - PLM_64, version 3, SIMPLIFIED

Arabidopsis_clock_P2011 - PLM_64, version 3, SIMPLIFIED
Version 1

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Simplified model file for PLaSMo accession ID PLM_64, version 3 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

SEEK ID: https://fairdomhub.org/models/428?version=1

1 item is associated with this Model:

PLM64_3_SIMPLIFIED.xml (XML document - 80.1 KB)

Organism: Not specified

Model type: Not specified

Model format: SBML

Execution or visualisation environment: Not specified

Model image: No image specified

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Andrew Millar

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No license - no permission to use unless the owner grants a licence

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Views: 63 Downloads: 4

Created: 10th Jan 2019 at 17:49

Last updated: 22nd Jan 2019 at 18:17

Last used: 20th Feb 2019 at 06:40

Attributions

None

Related items

People (2)
Projects (1)
Investigations (1)
Studies (1)
Assays (1)

BioData SynthSys

Projects: PlaSMo model repository

Institutions: University of Edinburgh

Andrew Millar

Projects: Millar group, TiMet, PHYTOCAL: Phytochrome Control of Resource Allocation and Growth in Arabidopsis and in Brassicaceae crops, POP - the Parameter Optimisation Problem, Regulation of flowering time pathways in Arabidopsis on the summer Solstice., PlaSMo model repository

Institutions: University of Edinburgh

https://orcid.org/0000-0003-1756-3654

Roles: Project Coordinator, Vice Coordinator

Expertise: Data Management, Molecular Biology, Genetics, Deterministic modelling of gene regulation networks, Systems Biology, circadian rhythms, arabidopsis thaliana, Mathematical modelling

Tools: Deterministic models, Stochastic models, SBML, Transcriptomics, Proteomics

PlaSMo model repository

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
...

Programme: SynthSys

Public web page: Not specified

Organisms: Arabidopsis thaliana, Ostreococcus tauri

Millar, Andrew

PlaSMo model repository

All contributors

Andrew Millar

Collection of models submitted to PLaSMo by Andrew Millar and automatically transferred to FAIRDOM Hub.

Snapshots: No snapshots

Studies: Arabidopsis clock model P2011, graphical diagram - PLM_1045, Arabidopsis clock model P2011.3.1 - PLM_1041, Arabidopsis clock model P2011.4.1 - PLM_1042, Arabidopsis clock model P2011.5.1 - PLM_1043, Arabidopsis clock model P2011.6.1 - PLM_1044, Arabidopsis clock models P2011.1.2 and P2011.2.1 - PLM_71, Arabidopsis_clock_P2011 - PLM_64, Arabidopsis_clock_P2012 - PLM_70, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, At_Pokh2011v6_plasmo_ltdParams.xml - PLM_68, AuxSim - PLM_27, AuxSim full - PLM_30, DomijanTS_AtClock2011 - PLM_50, Locke2005_CircadianClock_tanh - PLM_8, Locke2006_CircadianClock_tanh - PLM_10, OK MEP pathway 2013 - PLM_72, P2012_AJMv2_NoABA - PLM_69, Salazar2009_FloweringPhotoperiod - PLM_9, Sorokina2011_Ostreo_starch - PLM_44, Wilczek photothermal Science - PLM_48

Assays: Arabidopsis clock model P2011, graphical diagram - PLM_1045, version 1, Arabidopsis clock model P2011.3.1 - PLM_1041, version 1, Arabidopsis clock model P2011.4.1 - PLM_1042, version 1, Arabidopsis clock model P2011.5.1 - PLM_1043, version 1, Arabidopsis clock model P2011.6.1 - PLM_1044, version 1, Arabidopsis clock models P2011.1.2 and P2011.2.1 - PLM_71, version 1, Arabidopsis clock models P2011.1.2 and P2011.2.1 - PLM_71, version 2, Arabidopsis_clock_P2011 - PLM_64, version 1, Arabidopsis_clock_P2011 - PLM_64, version 2, Arabidopsis_clock_P2011 - PLM_64, version 3, Arabidopsis_clock_P2011 - PLM_64, version 4, Arabidopsis_clock_P2012 - PLM_70, version 1, Arabidopsis_clock_P2012 - PLM_70, version 2, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, version 1, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, version 2, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, version 3, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, version 4, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, version 5, At_Pokh2011_LD_degr_Op1Ap3.xml - PLM_67, version 6, At_Pokh2011v6_plasmo_ltdParams.xml - PLM_68, version 1, AuxSim - PLM_27, version 1, AuxSim full - PLM_30, version 1, DomijanTS_AtClock2011 - PLM_50, version 1, DomijanTS_AtClock2011 - PLM_50, version 2, Locke2005_CircadianClock_tanh - PLM_8, version 1, Locke2006_CircadianClock_tanh - PLM_10, version 1, OK MEP pathway 2013 - PLM_72, version 1, P2012_AJMv2_NoABA - PLM_69, version 1, P2012_AJMv2_NoABA - PLM_69, version 2, Salazar2009_FloweringPhotoperiod - PLM_9, version 1, Salazar2009_FloweringPhotoperiod - PLM_9, version 2, Sorokina2011_Ostreo_starch - PLM_44, version 1, Wilczek photothermal Science - PLM_48, version 1, Wilczek photothermal Science - PLM_48, version 2

Created: 10th Jan 2019 at 17:37, Last updated: 22nd Jan 2019 at 18:15

Arabidopsis_clock_P2011 - PLM_64

PlaSMo model repository

All contributors

BioData SynthSys

Andrew Millar

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. <a href="http://www.nature.com/msb/journal/v8/n1/synopsis/msb20126.html">Link</a>
...

Person responsible: BioData SynthSys

Snapshots: No snapshots

Investigation: Millar, Andrew

Assays: Arabidopsis_clock_P2011 - PLM_64, version 1, Arabidopsis_clock_P2011 - PLM_64, version 2, Arabidopsis_clock_P2011 - PLM_64, version 3, Arabidopsis_clock_P2011 - PLM_64, version 4

Created: 10th Jan 2019 at 17:38, Last updated: 22nd Jan 2019 at 18:17

Arabidopsis_clock_P2011 - PLM_64, version 3

PlaSMo model repository

All contributors

BioData SynthSys

Andrew Millar

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 ...

Contributor: BioData SynthSys

Biological problem addressed: Gene Regulatory Network

Snapshots: No snapshots

Investigation: Millar, Andrew

Study: Arabidopsis_clock_P2011 - PLM_64

Organisms: No organisms

Models: Arabidopsis_clock_P2011 - PLM_64, version 3, SI..., Arabidopsis_clock_P2011 - PLM_64, version 3, SU...

SOPs: No SOPs

Data files: Copasi file corresponding to PLM_64 version 3, ..., Fig. 1, outline of P2011 model, with P2010 inse..., Fig. 8, cartoon illustrating repressilator stru..., Matlab version of P2011 clock model, PLM_64_ 3, ODE file for Matlab version of P2011 clock mode...

Created: 10th Jan 2019 at 17:40, Last updated: 22nd Jan 2019 at 18:17

Arabidopsis_clock_P2011 - PLM_64, version 3, SIMPLIFIED Version 1

Related items

What is PlaSMo?

Our aims

Arabidopsis_clock_P2011 - PLM_64, version 3, SIMPLIFIED
Version 1