- Home
- Studies Index
- Arabidopsis clock model P2011, graphical diagram - PLM_1045
Creator - Dr. Daniel D. Seaton.
Graphical overview of Arabidopsis clock model P2011 in SBGN, from SBGN-ED in VANTED v2.
N.B. to pass PlaSMo validation before update, the <sbgn> tag was back-edited from the correct string <sbgn xmlns="http://sbgn.org/libsbgn/0.2"> to <sbgn xmlns="http://sbgn.org/libsbgn/pd/0.1"> in this file. The file is still correctly opened in VANTED after this modification. The unmodified version is also attached.
Related Publications
Flis et al. (2015). Open Infrastructure. RS Open Biology. Retrieved from: dx.doi.org/10.1098/rsob.150042
Originally submitted to PLaSMo on 2015-09-07 21:12:19
SEEK ID: https://fairdomhub.org/studies/483
Projects: PlaSMo model repository
Experimentalists: Not specified
Export PNG

Views: 109
Created: 10th Jan 2019 at 17:38
Last updated: 22nd Jan 2019 at 18:15
Related items
Projects: PlaSMo model repository
Institutions: University of Edinburgh
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

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
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
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
Creator - Dr. Daniel D. Seaton. Graphical overview of Arabidopsis clock model P2011 in SBGN, from SBGN-ED in VANTED v2. N.B. to pass PlaSMo validation before update, the <sbgn> tag was back-edited from the correct string <sbgn xmlns="http://sbgn.org/libsbgn/0.2"> to <sbgn xmlns="http://sbgn.org/libsbgn/pd/0.1"> in this file. The file is still correctly opened in VANTED after this modification. The unmodified version is also attached.
Related Publications
Flis
...
Contributor: BioData SynthSys
Biological problem addressed: Gene Regulatory Network
Snapshots: No snapshots
Investigation: Millar, Andrew
Study: Arabidopsis clock model P2011, graphical diagra...
Organisms: No organisms
Models: Arabidopsis clock model P2011, graphical diagra...
SOPs: No SOPs
Data files: P2011 in .GML format from VANTED v2, PLM_1045_ 1, PNG image of P2011 SBGN_PD,PLM_1045_ 1, unmodified SBGN file from Vanted v2.5.1 with SG...
Data file for PLaSMo accesssion ID PLM_1045, version 1
Creators: BioData SynthSys, Andrew Millar, Andrew Millar
Contributor: BioData SynthSys
Investigations: Millar, Andrew
Data file for PLaSMo accesssion ID PLM_1045, version 1
Creators: BioData SynthSys, Andrew Millar, Andrew Millar
Contributor: BioData SynthSys
Investigations: Millar, Andrew
Data file for PLaSMo accesssion ID PLM_1045, version 1
Creators: BioData SynthSys, Andrew Millar, Andrew Millar
Contributor: BioData SynthSys
Investigations: Millar, Andrew
Originally submitted model file for PLaSMo accession ID PLM_1045, version 1
Creators: BioData SynthSys, Andrew Millar, Andrew Millar
Contributor: BioData SynthSys
Model type: Not specified
Model format: SBGN-ML PD
Environment: Not specified
Organism: Not specified
Investigations: Millar, Andrew
Studies: Arabidopsis clock model P2011, graphical diagra...
Modelling analyses: Arabidopsis clock model P2011, graphical diagra...