ExploreList of samples used in the assay (extracted from original BioDare metadata and converted to csv)
SEEK ID: https://fairdomhub.org/data_files/8480?version=1
Filename:
Sample_list.csv
Format: Comma-separated values document
Size: 5.66 KB
sample_id,sample_type,origin,growth_stage,age,marker,data_cathegory,growth_cond_name,experiment_cond_name,ignored,unit,genetic_info.species,genetic_info.background,genetic_info.genotype,genetic_info.line,param.@name,param.@value 1,whole plant,whole plant,mid rosette,20,ACT2 155,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 2,whole plant,whole plant,mid rosette,20,ACT2 633,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 3,whole plant,whole plant,mid rosette,20,GAPDH3',qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 4,whole plant,whole plant,mid rosette,20,GAPDH5',qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 5,whole plant,whole plant,mid rosette,20,LHY,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 6,whole plant,whole plant,mid rosette,20,CCA1,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 7,whole plant,whole plant,mid rosette,20,PRR9,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 8,whole plant,whole plant,mid rosette,20,PRR7,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 9,whole plant,whole plant,mid rosette,20,PRR5,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 10,whole plant,whole plant,mid rosette,20,TOC1,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 11,whole plant,whole plant,mid rosette,20,GI,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 12,whole plant,whole plant,mid rosette,20,ELF3,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 13,whole plant,whole plant,mid rosette,20,ELF4,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 14,whole plant,whole plant,mid rosette,20,LUX,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 15,whole plant,whole plant,mid rosette,20,PIF4,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 16,whole plant,whole plant,mid rosette,20,PIF5,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),elf3-4,empty,unit,copy nr. per cell 17,whole plant,whole plant,mid rosette,20,ACT2 155,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 18,whole plant,whole plant,mid rosette,20,ACT2 633,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 19,whole plant,whole plant,mid rosette,20,GAPDH3',qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 20,whole plant,whole plant,mid rosette,20,GAPDH5',qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 21,whole plant,whole plant,mid rosette,20,LHY,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 22,whole plant,whole plant,mid rosette,20,CCA1,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 23,whole plant,whole plant,mid rosette,20,PRR9,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 24,whole plant,whole plant,mid rosette,20,PRR7,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 25,whole plant,whole plant,mid rosette,20,PRR5,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 26,whole plant,whole plant,mid rosette,20,TOC1,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 27,whole plant,whole plant,mid rosette,20,GI,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 28,whole plant,whole plant,mid rosette,20,ELF3,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 29,whole plant,whole plant,mid rosette,20,ELF4,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 30,whole plant,whole plant,mid rosette,20,LUX,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 31,whole plant,whole plant,mid rosette,20,PIF4,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell 32,whole plant,whole plant,mid rosette,20,PIF5,qRT-PCR,LD 20/18C,LD 20/18C,false,copy nr. per cell,Arabidopsis thaliana,Wasilewski (WS),Wild Type,empty,unit,copy nr. per cell
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Created: 18th Jun 2026 at 11:08
Last updated: 18th Jun 2026 at 11:08
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Version 1 (earliest) Created 18th Jun 2026 at 11:08 by Daniel Thedie
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https://orcid.org/0000-0002-1352-7245Research Software Engineer in the Biological Research Data Management team (BioRDM) at the University of Edinburgh.
The Centre for Engineering Biology is the University of Edinburgh's research organisation in interdisciplinary, Synthetic and Systems Biology, founded in 2023 as the successor to SynthSys, itself founded in 2012 as the successor to the Centre for Systems Biology at Edinburgh (CSBE). CSBE was newly founded in 2007. The Centre for Engineering Biology is a hub organisation that links across multiple, major funding awards, including an Engineering Biology Mission Hub, and EPSRC C-loop.
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, BioDare1
Web page: https://biology.ed.ac.uk/centre-engineering-biology
Experiment data previously hosted on the original version of BioDare (biodare.ed.ac.uk).
Programme: Centre for Engineering Biology (prev. SynthSys)
Public web page: Not specified
Collection of experiments created by Flis Anna on the original BioDare and automatically transferred to FAIRDOM Hub.
Submitter: Daniel Thedie
Studies: Flis et al. (2015), Flis et al. (2016), Unpublished
Assays: Clock gene RNAs under RD-RR in clock mutants, expt 1, Clock gene RNAs under RD-RR in clock mutants, expt 2, Clock gene RNAs under RD-RR in clock mutants, expt 3, Clock gene RNAs under RD-RR in clock mutants, expt 4, Flis et al. TiMet clock gene comparison across photoperiods, McWatters A.t. Col-0 WT clock RNA timeseries, Q-PCR LD (12:12) 17C CAB2, Q-PCR LD (12:12) 17C CCA1, Q-PCR LD (12:12) 17C ELF3, Q-PCR LD (12:12) 17C ELF4, Q-PCR LD (12:12) 17C GI, Q-PCR LD (12:12) 17C LHY, Q-PCR LD (12:12) 17C LUX, Q-PCR LD (12:12) 17C PRR5, Q-PCR LD (12:12) 17C PRR7, Q-PCR LD (12:12) 17C PRR9, Q-PCR LD (12:12) 17C TOC1, TiMet WP1.1 WS seedling vs rosette, TiMet WP1.1 qRT-PCR LD to LL and LD, TiMet WP1.1 qRT-PCR elf3 LD
Defining the robust behaviour of the plant clock gene circuit with absolute RNA timeseries and open infrastructure
Flis et al. (2015)
DOI: 10.1098/rsob.150042
Submitter: Daniel Thedie
Investigation: Flis Anna
Assays: Clock gene RNAs under RD-RR in clock mutants, expt 1, Clock gene RNAs under RD-RR in clock mutants, expt 2, Clock gene RNAs under RD-RR in clock mutants, expt 3, Clock gene RNAs under RD-RR in clock mutants, expt 4, McWatters A.t. Col-0 WT clock RNA timeseries, Q-PCR LD (12:12) 17C CAB2, Q-PCR LD (12:12) 17C CCA1, Q-PCR LD (12:12) 17C ELF3, Q-PCR LD (12:12) 17C ELF4, Q-PCR LD (12:12) 17C GI, Q-PCR LD (12:12) 17C LHY, Q-PCR LD (12:12) 17C LUX, Q-PCR LD (12:12) 17C PRR5, Q-PCR LD (12:12) 17C PRR7, Q-PCR LD (12:12) 17C PRR9, Q-PCR LD (12:12) 17C TOC1, TiMet WP1.1 WS seedling vs rosette, TiMet WP1.1 qRT-PCR LD to LL and LD, TiMet WP1.1 qRT-PCR elf3 LD
TiMet WP1.1 qRT-PCR elf3 LD
| Property | Value |
|---|---|
| BioDare ID | 2842 |
| Author | Anna Flis |
| Institution | MPI of Molecular Plant Physiology |
| License | CC_BY |
Description
WT and elf3-4 mutants, in biological duplicates, diurnal light, harvest every 2 hours Numbers are in transcript copy per cell, obtained assuming 1 g FW contains 25000000 cells.
Purpose
TiMet focuses on an important and general biological problem – how are plant ...
Submitter: Daniel Thedie
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Flis Anna
Study: Flis et al. (2015)
