Data files

RNA-Seq mapping results (part1): Sulfolobus solfataricus P2 grown on casaminoacids and d-glucose, mapped using bowtie2 against reference sequence of Sulfolobus solfataricus P2 (NBCI, see other data files of experiment).

RNA-Seq mapping results (part2): Sulfolobus solfataricus P2 grown on casaminoacids and d-glucose, mapped using bowtie2 against reference sequence of Sulfolobus solfataricus P2 (NBCI, see other data files of experiment).

RNA-Seq raw data: Sulfolobus solfataricus P2 grown on casaminoacids and d-glucose.

Reference genome of Sulfolobus solfataricus P2 used for mapping of RNA-seq results. Based on NCBI genome of Sulfolobus solfataricus.

Data for Figs. 2I, 2J, 2K in Chew et al. PNAS 2014
Fresh biomass, dry biomass (i.e. after baking out all water),
SLA - specific leaf area (area per g)

The same data are available on the BioDare resource, with additional experimental meta data on growth conditions.
BioDare ID 13790828881028, title "Physiology experiment using Col", the direct link is:
https://www.biodare.ed.ac.uk/robust/ShowExperiment.action?experimentId=13790828881028

Data for Figs. 3D, 3E in Chew et al. PNAS 2014
Fresh biomass, dry biomass (i.e. after baking out all water),
SLA - specific leaf area (area per g)
Also FMv1 model simulation results.

The same data are available on the BioDare resource, with additional experimental meta data on growth conditions.
BioDare ID 13790837647786, title "Physiology experiment using Fei", the direct link is:
https://www.biodare.ed.ac.uk/robust/ShowExperiment.action?experimentId=13790837647786

Data for Figs. 3A, 3B in Chew et al. PNAS 2014
Fresh biomass, dry biomass (i.e. after baking out all water),
SLA - specific leaf area (area per g)

Also contains model simulation data from the FMv1
The same data are available, with additional experimental meta data on growth conditions, from the BioDare resource:
BioDare experiment 13790834110003; title "Physiology experiment using Ler", the direct link is:
https://www.biodare.ed.ac.uk/robust/ShowExperiment.action?experimentId=13790834110003

Intact rosette is pictured, with plant number and genotype in handwritten labels, and ruler for scale.
Then dissected leaves are organised in sequence of age, if necessary with small cuts to let them lie flat.
Areas are then measured in image processing.

Data for Figs 3C, 3F and Supp 2 in Chew et al. PNAS 2014
Leaf number of the growing rosettes, from 4 to 37 days after sowing (DAS).
Data and also results of FMv1 model simulations.
Note that Fei-0 was previously tested by Mendez-Vigo et al, suggesting this line had a higher leaf appearance rate. We suggested that its larger final leaf number was more likely due to faster germination.

binary data file from "Hobo" environment multi-sensor + data logger, located next to the plants used in the experiment. Usually read in HOBOware software, free from Onsetcomp.com. Useful temperature record. Though light levels can usefully show changes they are not well calibrated.

Fig 5D

Figure 5D

Data for Fig. Supp 7B in Chew et al. PNAS 2014
Leaf number of the growing rosettes, from 5 to 37 days after sowing.
Data and also results of three FMv1 model simulations, with default, fitted and linear (i.e. no juvenile-adult transition in phyllochron)

Data for Figs. 5D, 5E and Supp 7C in Chew et al. PNAS 2014
FW - fresh weight
DW - dry weight (i.e. after baking out all water)
SLA - specific leaf area (area per g mass), indicates leaf thickness
Indiv, data for individual leaves rather than rosette

Experiment conducted in early April 2014
Intact rosette is pictured, with plant number and genotype in handwritten labels, and ruler for scale.
Then dissected leaves are organised in sequence of age,
if necessary with small cuts to let them lie flat.

Areas are then measured in image processing.

Supplementary information file from Chew et al. PNAS 2014, including full model description for Arabidopsis Framework Model v1, model simulations and experimental validations.

How to connect to the FAIRDOM SEEK with the collection of their APIs.

Excel sheet template : concentrations of intracellular metabolites

Quantitative proteomic analysis of Cyanothece ATCC51142 grown in 12L:12D light:dark cycles, using partial metabolic labeling and LC-MS analysis.

Microarray data at end of day (ED) and end of night (EN) in 4, 6, 8, 12, and 18h photoperiods.

Proteomics data for N15 incorporation into protein in Ostreococcus grown in 12L:12D light:dark cycles.

Mean and standard deviation of protein abundances in 6h, 8h, 12h, and 18h photoperiods.

Results of the statistical analysis, identifying proteins that change in abundance significantly across photoperiods.

Growth curves of the PA1008 strain of Pseudomonas aeruginosa with multiple concentrations of meropenem. Data set 1 is used to parametrise the model in our project. This consists of three biological replicates, each with three technical repeats. The meropenem concentrations used for this data set were: 0, 2, 4, 10, 20, 40, 200 ug/ml.