ExploreList of samples used in the assay (extracted from original BioDare metadata and converted to csv)
SEEK ID: https://fairdomhub.org/data_files/8642?version=1
Filename:
Sample_list.csv
Format: Comma-separated values document
Size: 4.25 KB
sample_id,sample_type,origin,growth_stage,age,marker,growth_cond_name,experiment_cond_name,ignored,genetic_info.species,genetic_info.background,genetic_info.genotype,genetic_info.line 1,group of seedlings,group of seedlings,seedling,0,CCA1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 2,group of seedlings,group of seedlings,seedling,0,CCA1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 3,group of seedlings,group of seedlings,seedling,0,CCA1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 4,group of seedlings,group of seedlings,seedling,0,CCA1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-OX,unknown 5,group of seedlings,group of seedlings,seedling,0,GI,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 6,group of seedlings,group of seedlings,seedling,0,GI,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 7,group of seedlings,group of seedlings,seedling,0,GI,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 8,group of seedlings,group of seedlings,seedling,0,GI,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-OX,unknown 9,group of seedlings,group of seedlings,seedling,0,TOC1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 10,group of seedlings,group of seedlings,seedling,0,TOC1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 11,group of seedlings,group of seedlings,seedling,0,TOC1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 12,group of seedlings,group of seedlings,seedling,0,TOC1,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-OX,unknown 13,group of seedlings,group of seedlings,seedling,0,ELF4,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 14,group of seedlings,group of seedlings,seedling,0,ELF4,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 15,group of seedlings,group of seedlings,seedling,0,ELF4,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 16,group of seedlings,group of seedlings,seedling,0,ELF4,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-OX,unknown 17,group of seedlings,group of seedlings,seedling,0,LHY,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 18,group of seedlings,group of seedlings,seedling,0,LHY,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 19,group of seedlings,group of seedlings,seedling,0,LHY,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 20,group of seedlings,group of seedlings,seedling,0,LHY,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-OX,unknown 21,group of seedlings,group of seedlings,seedling,0,ELF3,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 22,group of seedlings,group of seedlings,seedling,0,ELF3,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 23,group of seedlings,group of seedlings,seedling,0,ELF3,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 24,group of seedlings,group of seedlings,seedling,0,ELF3,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-OX,unknown 25,group of seedlings,group of seedlings,seedling,0,CO,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 26,group of seedlings,group of seedlings,seedling,0,CO,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 27,group of seedlings,group of seedlings,seedling,0,CO,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown 28,group of seedlings,group of seedlings,seedling,0,FT,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),Wild Type,unknown 29,group of seedlings,group of seedlings,seedling,0,FT,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),gi-11,unknown 30,group of seedlings,group of seedlings,seedling,0,FT,12hR:12hD,12hR:12hD; RR,false,Arabidopsis thaliana,Wasilewski (WS),toc1 -OX,unknown
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Created: 18th Jun 2026 at 12:39
Last updated: 18th Jun 2026 at 12:39
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Version 1 (earliest) Created 18th Jun 2026 at 12:39 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
Clock gene RNAs under RD-RR in clock mutants, expt 4
| Property | Value |
|---|---|
| BioDare ID | 13228357183121 |
| Author | Locke |
| Institution | |
| License |
Description
Literature data from: 'Extension of a genetic network model by iterative experimentation and mathematical analysis.' by: Locke.
First, heroic large-scale RNA profile screen by real-time qPCR in 96-well format, by Megan Southern in 2005. Experiment 4 of 4.
Purpose
Testing effects of clock ...
Submitter: Daniel Thedie
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Flis Anna
Study: Flis et al. (2015)
