BioDare_metadata Version 1
Original BioDare metadata, converted to json format
SEEK ID: https://fairdomhub.org/data_files/8923?version=1
Filename:
BioDare_metadata.json
Format: JSON document
Size: 288 KB
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"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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"background": "Wasilewski (WS)",
"genotype": "Wild Type",
"line": "M0013",
"provenance": "Robust stock"
},
"marker": "ELF4",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"ignored": "false",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "206",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
"species": "Arabidopsis thaliana",
"background": "Wasilewski (WS)",
"genotype": "Wild Type",
"line": "M0013",
"provenance": "Robust stock"
},
"marker": "ELF4",
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"ignored": "false",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "207",
"sample_type": "seedling",
"origin": "seedling",
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"age": "7",
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},
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"ignored": "false",
"param": {
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}
},
{
"sample_id": "208",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
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},
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"ignored": "false",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "209",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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"background": "Wasilewski (WS)",
"genotype": "Wild Type",
"line": "M0013",
"provenance": "Robust stock"
},
"marker": "ELF4",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"ignored": "false",
"param": {
"@name": "TAG",
"@value": "Luc"
}
}
]
}
},
"pedro": {
"@xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance",
"@xsi:schemaLocation": "/C:/Honours Project/DataDescription/models/luc/model/newluc_model.xsd",
"id": "130313H1",
"status": "finished",
"name": "130313H1: 14L14D x 4 LL x 3 (T-28)",
"purpose": "To test whether cca1/lhy double mutant can adjust to change in photoperiod in T-cycle",
"description": "Plants entrained in 14L 14D \nExperimental conditions: 14L14Dx4 LLx3",
"comments": "Wrong imaging script was used (90mins) for T-28.\n5mins, 10mins and 10mins of L was cut out during D1, D2 and D3 of imaging respectively.",
"provenance": {
"site": "Edinburgh",
"author": "Wei Ven Tee",
"start_date": "2013-03-13"
},
"growth_condition": {
"name": "14L14D",
"medium": "Agar 1.2% MS 0.5",
"incubation": "6 days",
"growth_space": "Percival",
"duration": "6",
"comment": "Duration referred to T-cycle",
"temperature_conditions": {
"constant_temp": {
"cycle_length": "28",
"base_temp": "22"
}
},
"light_conditions": {
"light_channel": {
"spectrum": "white",
"intensity": "120",
"source": "tube",
"light_complex_settings": {
"light_days": {
"start_day": "1",
"duration": "6",
"diurnal_light": {
"cycle_length": "28",
"start_time": "0",
"duration": "14"
}
}
}
}
}
},
"experimental_condition": {
"name": "14L14D x 4 LL x 3",
"medium": "Agar 1.2% MS 0.5",
"growth_space": "Percival + LED",
"duration": "7",
"comment": "5mins, 10mins and 10mins was cut out during D1, D2 and D3 of imaging due to the wrong script.",
"temperature_conditions": {
"constant_temp": {
"cycle_length": "28",
"base_temp": "22"
}
},
"light_conditions": {
"light_channel": [
{
"spectrum": "blue",
"intensity": "40",
"source": "LED",
"light_complex_settings": {
"light_days": [
{
"start_day": "1",
"duration": "4",
"diurnal_light": {
"cycle_length": "28",
"start_time": "0",
"duration": "14"
}
},
{
"start_day": "5",
"duration": "3",
"constant_light": {
"cycle_length": "28"
}
}
]
}
},
{
"spectrum": "red",
"intensity": "72",
"source": "LED",
"light_complex_settings": {
"light_days": [
{
"start_day": "1",
"duration": "4",
"diurnal_light": {
"cycle_length": "28",
"start_time": "0",
"duration": "14"
}
},
{
"start_day": "5",
"duration": "3",
"constant_light": {
"cycle_length": "28"
}
}
]
}
}
]
}
},
"measurement": {
"technique": "Luciferase luminescence",
"equipment": "HAM 1",
"parameters": "45mins wait, 5mins lights off, 25mins capture"
},
"sample_preparation": {
"method": "Plants sprayed with luciferin on day 7 of growth conditions and transferred to imaging cabinet under experimental conditions."
},
"samples": {
"sample": [
{
"sample_id": "1",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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"background": "Wasilewski (WS)",
"genotype": "Img Background",
"provenance": "Robust stock"
},
"marker": "Actin",
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"experiment_cond_name": "14L14D x 4 LL x 3",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "2",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
"species": "Arabidopsis thaliana",
"background": "Wasilewski (WS)",
"genotype": "cca1;lhy",
"line": "M0023",
"provenance": "Robust stock"
},
"marker": "TOC1",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "3",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
"species": "Arabidopsis thaliana",
"background": "Wasilewski (WS)",
"genotype": "cca1;lhy",
"line": "M0023",
"provenance": "Robust stock"
},
"marker": "TOC1",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "4",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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},
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"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "5",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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"background": "Wasilewski (WS)",
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},
"marker": "TOC1",
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"param": {
"@name": "TAG",
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}
},
{
"sample_id": "6",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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"genotype": "cca1;lhy",
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"provenance": "Robust stock"
},
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"param": {
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"@value": "Luc"
}
},
{
"sample_id": "7",
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"origin": "seedling",
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"age": "7",
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},
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"param": {
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}
},
{
"sample_id": "8",
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"origin": "seedling",
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"age": "7",
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},
"marker": "TOC1",
"growth_cond_name": "14L14D",
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"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "9",
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"origin": "seedling",
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"age": "7",
"genetic_info": {
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},
"marker": "TOC1",
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"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "10",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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"background": "Wasilewski (WS)",
"genotype": "cca1;lhy",
"line": "M0023",
"provenance": "Robust stock"
},
"marker": "TOC1",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "11",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
"species": "Arabidopsis thaliana",
"background": "Wasilewski (WS)",
"genotype": "cca1;lhy",
"line": "M0023",
"provenance": "Robust stock"
},
"marker": "TOC1",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "12",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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},
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"param": {
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"@value": "Luc"
}
},
{
"sample_id": "13",
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"origin": "seedling",
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"age": "7",
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},
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"param": {
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}
},
{
"sample_id": "14",
"sample_type": "seedling",
"origin": "seedling",
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"age": "7",
"genetic_info": {
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"provenance": "Robust stock"
},
"marker": "TOC1",
"growth_cond_name": "14L14D",
"experiment_cond_name": "14L14D x 4 LL x 3",
"param": {
"@name": "TAG",
"@value": "Luc"
}
},
{
"sample_id": "15",
"sample_type": "seedling",
"origin": "seedling",
"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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},
"marker": "TOC1",
"growth_cond_name": "14L14D",
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"param": {
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}
},
{
"sample_id": "16",
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"growth_stage": "seedling",
"age": "7",
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},
"marker": "TOC1",
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"param": {
"@name": "TAG",
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}
},
{
"sample_id": "17",
"sample_type": "seedling",
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"growth_stage": "seedling",
"age": "7",
"genetic_info": {
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},
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"param": {
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"@value": "Luc"
}
},
{
"sample_id": "18",
"sample_type": "seedling",
"origin": "seedling",
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"age": "7",
"genetic_info": {
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},
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"param": {
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}
},
{
"sample_id": "19",
"sample_type": "seedling",
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},
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}
},
{
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},
{
"sample_id": "21",
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}
},
{
"sample_id": "22",
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}
},
{
"sample_id": "23",
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}
},
{
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},
{
"sample_id": "25",
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},
{
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},
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}
},
{
"sample_id": "27",
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},
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"param": {
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}
},
{
"sample_id": "28",
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},
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"param": {
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}
},
{
"sample_id": "29",
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},
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}
},
{
"sample_id": "30",
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},
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}
},
{
"sample_id": "31",
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{
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},
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"experiment_cond_name": "14L14D x 4 LL x 3",
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}
},
{
"sample_id": "209",
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},
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"param": {
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}
}
]
}
},
"biblio": {
"principal": "Andrew Millar",
"institution": "University of Edinburgh",
"author": [
"Wei Ven Tee",
"Sarah Hodge"
]
}
}
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Created: 18th Jun 2026 at 14:18
Last updated: 18th Jun 2026 at 14:18
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Version 1 (earliest) Created 18th Jun 2026 at 14:18 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.
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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
Advanced Projects list for this Data file with search and filtering
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
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Collection of experiments created by Millar Andrew on the original BioDare and automatically transferred to FAIRDOM Hub.
Submitter: Daniel Thedie
Studies: Millar et al. (2015), TiMet double dawns, TiMet shady nights
Assays: 010514H1, 010514H2, 030413H3: 12B-12Dx4 BB3, 030714H1, 030714H2, 060213H3: 12B-12Dx4 BBx3, 060313H1: 5L15Dx4 LLx3 (T-20), 060313H2: 12F-12Dx4 FFx3, 070814H1, 070814H2, 080115H1, 080115H2, 100414H1, 100414H2, 130212H1: 5L15Dx4 LLx3 (T-20), 130213H3: 12R-12Dx4 RRx3, 130313H1: 14L14D x 4 LL x 3 (T-28), 130313H2: 12F-12Dx4 FFx3, 140515H1, 140515H2, 140814H1, 140814H2, 190614H1, 190614H2, 200213H1: 15L5D x4 LL x3 (T-20), 200213H3: 12B-12Dx4 BB3, 200313H2: 7L 21Dx4 LLx3 (T-28), 200313H3: 12L-12Dx4 LLx3, 210814H1, 210814H2, 240414H1, 240414H2, 270213H1: 10L10Dx4 LLx3 (T-20), 270213H3: 12R-12Dx4 RRx3, 270313H1: 21L 7Dx4 LLx3 (T-28), 270313H3: 12L-12Dx4 LLx3, 280814H1, 280814H2, 290313H2: 15L 5Dx4 LLx3, AT0043: 4x 12:12-DD, AT0048 4x 18:6-DD, AT0078: 4x6:18-DD, AT0080: 4x18:6-DD
Advanced Studies list for this Data file with search and filtering
Changing planetary rotation rescues the biological clock mutant lhy cca1 of Arabidopsis thaliana
Millar et al. (2015)
DOI: 10.1101/034629
Submitter: Daniel Thedie
Investigation: Millar Andrew
Assays: 030413H3: 12B-12Dx4 BB3, 060213H3: 12B-12Dx4 BBx3, 060313H1: 5L15Dx4 LLx3 (T-20), 060313H2: 12F-12Dx4 FFx3, 130212H1: 5L15Dx4 LLx3 (T-20), 130213H3: 12R-12Dx4 RRx3, 130313H1: 14L14D x 4 LL x 3 (T-28), 130313H2: 12F-12Dx4 FFx3, 200213H1: 15L5D x4 LL x3 (T-20), 200213H3: 12B-12Dx4 BB3, 200313H2: 7L 21Dx4 LLx3 (T-28), 200313H3: 12L-12Dx4 LLx3, 270213H1: 10L10Dx4 LLx3 (T-20), 270213H3: 12R-12Dx4 RRx3, 270313H1: 21L 7Dx4 LLx3 (T-28), 270313H3: 12L-12Dx4 LLx3, 290313H2: 15L 5Dx4 LLx3, AT0043: 4x 12:12-DD, AT0048 4x 18:6-DD, AT0078: 4x6:18-DD, AT0080: 4x18:6-DD
Advanced Assays list for this Data file with search and filtering
130313H1: 14L14D x 4 LL x 3 (T-28)
| Property | Value |
|---|---|
| BioDare ID | 13637871113032 |
| Author | Wei Ven Tee |
| Institution | University of Edinburgh |
| License | CC_BY |
Description
Plants entrained in 14L 14D Experimental conditions: 14L14Dx4 LLx3
Purpose
To test whether cca1/lhy double mutant can adjust to change in photoperiod in T-cycle
Comments
Wrong imaging script was used (90mins) for T-28. 5mins, 10mins and 10mins of L was cut out ...
Submitter: Daniel Thedie
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Millar Andrew
Study: Millar et al. (2015)
