Supplementary information file from Chew et al. PNAS 2014, including full model description for Arabidopsis Framework Model v1, model simulations and experimental validations.
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Version 1 (earliest) Created 22nd Aug 2018 at 11:48 by Andrew Millar
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Projects: Millar group, TiMet
Institutions: University of Edinburgh
https://orcid.org/0000-0002-9258-583XProjects: 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 in natural conditions, PlaSMo model repository
Institutions: University of Edinburgh
https://orcid.org/0000-0003-1756-3654SynthSys is the University of Edinburgh's research organisation in interdisciplinary, Synthetic and Systems Biology, founded in 2012 as the successor to the Centre for Systems Biology at Edinburgh (CSBE).
Projects: Millar group, PHYTOCAL: Phytochrome Control of Resource Allocation and Growth in Arabidopsis and in Brassicaceae crops, TiMet, POP - the Parameter Optimisation Problem, Regulation of flowering time in natural conditions, PlaSMo model repository
Web page: http://www.synthsys.ed.ac.uk
Andrew Millar's research group, University of Edinburgh
Programme: SynthSys
Public web page: http://www.amillar.org
Organisms: Escherichia coli, Arabidopsis thaliana, Ostreococcus tauri
EU FP7 collaborative project TiMet, award number 245143. Funded 2010-2015. "TiMet assembles world leaders in experimental and theoretical plant systems biology to advance understanding of the regulatory interactions between the circadian clock and plant metabolism, and their emergent effects on whole-plant growth and productivity."
Programme: SynthSys
Public web page: http://timing-metabolism.eu/
Organisms: Arabidopsis thaliana, Ostreococcus tauri
Data, models and simulations for the Chew et al. 2014 paper (PNAS, https://doi.org/10.1073/pnas.1410238111), using wild-type Arabidopsis ecotype Col-0 in standard 12hL:12hD growth conditions, compared to La(er) or Fei-0 accessions, or to plants overexpressing a micro RNA (miR156).
Submitter: Andrew Millar
Studies: Construction of Framework Model v1, Test of FMv1, growth study of Col-0 accession in 12L:12D, Test of FMv1, growth study of Col-0 accession in 5 photoperiods, Test of FMv1, growth study of other accessions and transgenic line in 12...
Assays: Arabidopsis Framework Model v1, Matlab and Simile version, Gas exchange of Fei-0 and Ler plants in 12hL:12hD, Growth of Col-0 and 35S:miR156 plants in 12hL:12hD, Growth of Col-0 in 12hL:12hD, Growth of Col-0 plants in 5 photoperiods, Growth of Fei-0 and Ler plants in 12hL:12hD
Snapshots: No snapshots
The FMv1 was constructed from 4 existing models, with Matlab and Simile versions.
Submitter: Andrew Millar
Investigation: Arabidopsis Framework Model v1, predicting rose...
Assays: Arabidopsis Framework Model v1, Matlab and Simile version
Snapshots: No snapshots
In future we should split these versions into separate Assays, and link to the four, original component models, when they are imported with the PlaSMo resource into FairdomHub (expected late 2018)
Submitter: Andrew Millar
Biological problem addressed: Model Analysis Type
Investigation: Arabidopsis Framework Model v1, predicting rose...
Organisms: No organisms
Models: Chew_et_al_2014_Framework_Model version 1, Matl...
SOPs: No SOPs
Data files: Supplementary Information on FMv1 model
Snapshots: No snapshots
Abstract (Expand)
Authors: Y. H. Chew, B. Wenden, A. Flis, V. Mengin, J. Taylor, C. L. Davey, C. Tindal, H. Thomas, H. J. Ougham, P. de Reffye, M. Stitt, M. Williams, R. Muetzelfeldt, K. J. Halliday, A. J. Millar
Date Published: 10th Sep 2014
Publication Type: Not specified
PubMed ID: 25197087
Citation: Proc Natl Acad Sci U S A. 2014 Sep 30;111(39):E4127-36. doi: 10.1073/pnas.1410238111. Epub 2014 Sep 2.