{ "id": "13227622661196", "status": "described", "provenance": { "desc_version": "2", "data_version": "2", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:46" }, "modified": [ { "by": "Karen Haliday", "date": "2015-10-18T01:37:40", "version": "2.2" }, { "by": "SYSTEM USER", "date": "2014-09-15T16:54:01" }, { "by": "SYSTEM USER", "date": "2014-09-08T18:30:37" }, { "by": "Robert Smith", "date": "2012-04-26T12:23:45" }, { "by": "Robert Smith", "date": "2011-12-13T19:03:41" }, { "by": "Robert Smith", "date": "2011-12-02T11:57:54" }, { "by": "Robert Smith", "date": "2011-12-02T09:33:44" }, { "by": "Robert Smith", "date": "2011-12-01T17:57:54" }, { "by": "Robert Smith", "date": "2011-12-01T17:57:46" }, { "by": "Robert Smith", "date": "2011-12-01T17:57:46" } ] }, "description_file": { "id": "0", "file_type": "description file", "original_name": "description file", "version": [ { "id": "2", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "13227622661196_dsc.2.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/13227622661196_dsc.2.xml", "uploaded": { "by": "Robert Smith", "date": "2011-12-02T11:57:54" } }, { "id": "1", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "13227622661196_dsc.1.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/13227622661196_dsc.1.xml", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:54" } }, { "id": "0", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "13227622661196_dsc.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/13227622661196_dsc.xml", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:46" } } ] }, "pedro_file": { "id": "0", "file_type": "pedro file", "original_name": "pedro file", "version": { "id": "0", "file_type": "pedro file", "content_type": "text/xml", "original_name": "edwards.xml", "local_name": "edwards.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/edwards.xml", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:46", "version": "1" } } }, "bibliographyFile": { "id": "0", "file_type": "BIBLIOGRAPHY", "original_name": "13227622661196_bibl.xml", "version": { "id": "2", "file_type": "BIBLIOGRAPHY", "content_type": "text/plain", "original_name": "13227622661196_bibl.xml", "local_name": "13227622661196_bibl.xml", "local_path": "/localdisk/data/biodare/biodare3_prod/Robust/Storage/13227622661196/13227622661196_bibl.xml", "uploaded": { "by": "Karen Haliday", "date": "2015-10-18T01:37:40", "version": "2" } } }, "data_file": { "id": "0", "file_type": "data file", "original_name": "edwards.xls", "version": [ { "id": "1", "file_type": "data file", "content_type": "application/octet-stream", "original_name": "edwards.xls", "local_name": "edwards.1.xls", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/edwards.1.xls", "uploaded": { "by": "Robert Smith", "date": "2011-12-02T11:57:54", "version": "2" }, "parameter": [ { "name": "error_type", "value": "std_err" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "5" }, { "name": "time_col", "value": "1" } ] }, { "id": "0", "file_type": "data file", "content_type": "application/octet-stream", "original_name": "edwards.xls", "local_name": "edwards.xls", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/edwards.xls", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:54", "version": "1" }, "parameter": [ { "name": "error_type", "value": "none" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "5" }, { "name": "time_col", "value": "1" } ] } ] }, "std_raw_file": { "id": "0", "file_type": "data file", "original_name": "STANDARD_RAWDATAFILE.txt", "version": [ { "id": "1", "file_type": "data file", "content_type": "text/plain", "original_name": "STANDARD_RAWDATAFILE.txt", "local_name": "STANDARD_RAWDATAFILE.1.txt", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/STANDARD_RAWDATAFILE.1.txt", "uploaded": { "by": "Robert Smith", "date": "2011-12-02T11:57:54" }, "parameter": [ { "name": "error_type", "value": "std_err" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "5" }, { "name": "time_col", "value": "1" } ] }, { "id": "0", "file_type": "data file", "content_type": "text/plain", "original_name": "STANDARD_RAWDATAFILE.txt", "local_name": "STANDARD_RAWDATAFILE.txt", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/STANDARD_RAWDATAFILE.txt", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:54" }, "parameter": [ { "name": "error_type", "value": "none" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "5" }, { "name": "time_col", "value": "1" } ] } ] }, "numeric_file": { "id": "0", "file_type": "data file", "original_name": "STANDARD_DATAFILE.txt", "version": [ { "id": "1", "file_type": "data file", "content_type": "text/plain", "original_name": "STANDARD_DATAFILE.txt", "local_name": "STANDARD_DATAFILE.1.txt", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/STANDARD_DATAFILE.1.txt", "uploaded": { "by": "Robert Smith", "date": "2011-12-02T11:57:54" }, "parameter": [ { "name": "error_type", "value": "std_err" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "5" }, { "name": "time_col", "value": "1" } ] }, { "id": "0", "file_type": "data file", "content_type": "text/plain", "original_name": "STANDARD_DATAFILE.txt", "local_name": "STANDARD_DATAFILE.txt", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/STANDARD_DATAFILE.txt", "uploaded": { "by": "Robert Smith", "date": "2011-12-01T17:57:54" }, "parameter": [ { "name": "error_type", "value": "none" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "5" }, { "name": "time_col", "value": "1" } ] } ] }, "user_file": { "id": "0", "file_type": "user file", "original_name": "effectofphotoperiods-edwards2010.pdf", "version": { "id": "0", "file_type": "data file", "content_type": "application/pdf", "original_name": "effectofphotoperiods-edwards2010.pdf", "local_name": "effectofphotoperiods-edwards2010.pdf", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227622661196/effectofphotoperiods-edwards2010.pdf", "uploaded": { "by": "Robert Smith", "date": "2011-12-02T09:33:44" } } }, "security": { "owner": "robert", "supervisor": "karen", "allowedToRead": [ "edinburgh", "halliday", "millar", "public", "robust" ] }, "open_access_info": { "grantedBy": "karen", "grantedOn": "2012-04-26T12:23:45", "licence": "CC_BY", "comment": "System generated on 17-Oct-2014" }, "desc": { "experiment_type": "Literature data", "id": "13227622661196", "status": "described", "name": "Edwards et al. (2010); WT in different light conditions.", "purpose": "To investigate the dusk-sensing of clock genes and compare the results to mathematical models of the circadian clock.", "description": "Literature data from: 'Quantitative analysis of regulatory flexibility under changing environmental conditions.'\n\t by: Edwards, K.D..\n\t \n\t Theory suggested that multiple loops contribute the flexibility for molecular rhythms to track multiple phases of the external cycle. Clear dawn- and dusk-tracking rhythms illustrate the flexibility of timing in Ipomoea nil. Molecular clock components in Arabidopsis thaliana showed complex, photoperiod-dependent regulation.", "pubmed_id": "21045818", "provenance": { "site": "Millar", "author": "Edwards, K.D.", "start_date": "2010-11-02" }, "growth_condition": [ { "name": "growth_edwards_ph3", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "7", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "7", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: LD 03:00:21:00", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 03:00:21:00", "duration": "7", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "7", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "3:00" } } } } } }, { "name": "growth_edwards_ph6", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "7", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "7", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: LD 06:00:18:00", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 06:00:18:00", "duration": "7", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "7", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "6:00" } } } } } }, { "name": "growth_edwards_ph9", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "7", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "7", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: LD 09:00:15:00", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 09:00:15:00", "duration": "7", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "7", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "9:00" } } } } } }, { "name": "growth_edwards_ph12", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "7", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "7", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: LD 12:00:12:00", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 12:00:12:00", "duration": "7", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "7", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "12:00" } } } } } }, { "name": "growth_edwards_ph18", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "7", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "7", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: LD 18:00:06:00", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 18:00:06:00", "duration": "7", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "7", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "18:00" } } } } } } ], "experimental_condition": [ { "name": "experiment_edwards_ph3toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 03:00:21:00; 2*LL", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 03:00:21:00; 2*LL", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "3:00" } }, { "type": "constant_light", "label": "constant light", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "24:00" } } ] } } } }, { "name": "experiment_edwards_ph6toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 06:00:18:00; 2*LL", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 06:00:18:00; 2*LL", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "6:00" } }, { "type": "constant_light", "label": "constant light", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "24:00" } } ] } } } }, { "name": "experiment_edwards_ph9toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 09:00:15:00; 2*LL", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 09:00:15:00; 2*LL", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "9:00" } }, { "type": "constant_light", "label": "constant light", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "24:00" } } ] } } } }, { "name": "experiment_edwards_ph12toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 12:00:12:00; 2*LL", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 12:00:12:00; 2*LL", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "12:00" } }, { "type": "constant_light", "label": "constant light", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "24:00" } } ] } } } }, { "name": "experiment_edwards_ph18toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 18:00:06:00; 2*LL", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 18:00:06:00; 2*LL", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "18:00" } }, { "type": "constant_light", "label": "constant light", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "24:00" } } ] } } } }, { "name": "experiment_edwards_ph6toDD", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 06:00:18:00; 2*DD", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 06:00:18:00; 2*DD", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "6:00" } }, { "type": "constant_dark", "label": "constant dark", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "0.0" } ] } } } }, { "name": "experiment_edwards_ph12toDD", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 12:00:12:00; 2*DD", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 12:00:12:00; 2*DD", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "12:00" } }, { "type": "constant_dark", "label": "constant dark", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "0.0" } ] } } } }, { "name": "experiment_edwards_ph18toDD", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3.0", "temperature_conditions": { "label": "const. 22.0C", "env_conditions": { "type": "constant_temp", "label": "const. 22.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "22.0", "second_value": "22.0" } } }, "light_conditions": { "label": "W: 1*LD 18:00:06:00; 2*DD", "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "env_conditions": { "type": "light_complex", "label": "1*LD 18:00:06:00; 2*DD", "duration": "3", "env_day": [ { "type": "diurnal_light", "label": "diurnal light", "duration": "1", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "18:00" } }, { "type": "constant_dark", "label": "constant dark", "duration": "2", "cycle_length": "24", "base_value": "0.0", "second_value": "0.0" } ] } } } } ], "measurement": { "technique": "RT-PCR", "equipment": "Light Cycler 480 (Roche, UK)", "param": [ { "@name": "RD error_type", "@value": "std_err" }, { "@name": "RD first_data_col", "@value": "2" }, { "@name": "RD first_data_row", "@value": "5" }, { "@name": "RD time_col", "@value": "1" } ] }, "sample_preparation": { "method": "RNA was extracted and reverse transcribed as described previously (Locke et al, 2005b). Q-PCR was carried out using SYBR Green JumpStart Taq ReadyMix (Sigma, Gillingham, UK) in technical triplicate." }, "samples": { "sample": [ { "sample_id": "1", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph3", "experiment_cond_name": "experiment_edwards_ph3toLL", "ignored": "false" }, { "sample_id": "2", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "3", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph9", "experiment_cond_name": "experiment_edwards_ph9toLL", "ignored": "false" }, { "sample_id": "4", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "5", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "6", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "7", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "8", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" }, { "sample_id": "9", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph3", "experiment_cond_name": "experiment_edwards_ph3toLL", "ignored": "false" }, { "sample_id": "10", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "11", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph9", "experiment_cond_name": "experiment_edwards_ph9toLL", "ignored": "false" }, { "sample_id": "12", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "13", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "14", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "15", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "16", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" }, { "sample_id": "17", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph3", "experiment_cond_name": "experiment_edwards_ph3toLL", "ignored": "false" }, { "sample_id": "18", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "19", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph9", "experiment_cond_name": "experiment_edwards_ph9toLL", "ignored": "false" }, { "sample_id": "20", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "21", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "22", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "23", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "24", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" }, { "sample_id": "25", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "26", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "27", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "28", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "29", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "30", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" }, { "sample_id": "31", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "32", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "33", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "34", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "35", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "36", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" }, { "sample_id": "37", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "38", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "39", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "40", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "41", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "42", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" }, { "sample_id": "43", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL", "ignored": "false" }, { "sample_id": "45", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL", "ignored": "false" }, { "sample_id": "46", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL", "ignored": "false" }, { "sample_id": "47", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD", "ignored": "false" }, { "sample_id": "48", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD", "ignored": "false" }, { "sample_id": "49", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type", "line": "unknown" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD", "ignored": "false" } ] } }, "pedro": { "@xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance", "@xsi:schemaLocation": "/Z:/communal/DataDescription/models/literature/model/full_literature.xsd", "name": "Edwards et al. (2010); WT in different light conditions.", "purpose": "To investigate the dusk-sensing of clock genes and compare the results to mathematical models of the circadian clock.", "description": "Theory suggested that multiple loops contribute the flexibility for molecular rhythms to track multiple phases of the external cycle. Clear dawn- and dusk-tracking rhythms illustrate the flexibility of timing in Ipomoea nil. Molecular clock components in Arabidopsis thaliana showed complex, photoperiod-dependent regulation.", "pubmed_id": "21045818", "provenance": { "pub_title": "Quantitative analysis of regulatory flexibility under changing environmental conditions.", "first_author": "Edwards, K.D.", "group": "Millar", "pub_date": "2010-11-02" }, "growth_condition": [ { "name": "growth_edwards_ph3", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "3" } } } }, { "name": "growth_edwards_ph6", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "6" } } } }, { "name": "growth_edwards_ph9", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "9" } } } }, { "name": "growth_edwards_ph12", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "12" } } } }, { "name": "growth_edwards_ph18", "medium": "Agar 2% MS 1 3% Sucrose", "stratification": "3 days at 4C", "duration": "7", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "18" } } } } ], "experimental_condition": [ { "name": "experiment_edwards_ph3toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "3" } }, { "start_day": "2", "duration": "2", "constant_light": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph6toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "6" } }, { "start_day": "2", "duration": "2", "constant_light": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph9toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "9" } }, { "start_day": "2", "duration": "2", "constant_light": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph12toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "12" } }, { "start_day": "2", "duration": "2", "constant_light": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph18toLL", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "18" } }, { "start_day": "2", "duration": "2", "constant_light": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph6toDD", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "6" } }, { "start_day": "2", "duration": "2", "constant_dark": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph12toDD", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "12" } }, { "start_day": "2", "duration": "2", "constant_dark": { "cycle_length": "24" } } ] } } } }, { "name": "experiment_edwards_ph18toDD", "medium": "Agar 2% MS 1 3% Sucrose", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "22" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "60", "source": "LED", "light_complex_settings": { "light_days": [ { "start_day": "1", "duration": "1", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "18" } }, { "start_day": "2", "duration": "2", "constant_dark": { "cycle_length": "24" } } ] } } } } ], "measurement": { "technique": "RT-PCR", "equipment": "Light Cycler 480 (Roche, UK)" }, "sample_preparation": { "method": "RNA was extracted and reverse transcribed as described previously (Locke et al, 2005b). Q-PCR was carried out using SYBR Green JumpStart Taq ReadyMix (Sigma, Gillingham, UK) in technical triplicate." }, "samples": { "sample": [ { "sample_id": "1", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph3", "experiment_cond_name": "experiment_edwards_ph3toLL" }, { "sample_id": "2", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "3", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph9", "experiment_cond_name": "experiment_edwards_ph9toLL" }, { "sample_id": "4", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "5", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "6", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "7", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "8", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CCA1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" }, { "sample_id": "9", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph3", "experiment_cond_name": "experiment_edwards_ph3toLL" }, { "sample_id": "10", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "11", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph9", "experiment_cond_name": "experiment_edwards_ph9toLL" }, { "sample_id": "12", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "13", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "14", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "15", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "16", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" }, { "sample_id": "17", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph3", "experiment_cond_name": "experiment_edwards_ph3toLL" }, { "sample_id": "18", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "19", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph9", "experiment_cond_name": "experiment_edwards_ph9toLL" }, { "sample_id": "20", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "21", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "22", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "23", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "24", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "GI", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" }, { "sample_id": "25", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "26", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "27", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "28", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "29", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "30", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "CO", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" }, { "sample_id": "31", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "32", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "33", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "34", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "35", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "36", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "DPE2", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" }, { "sample_id": "37", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "38", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "39", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "40", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "41", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "42", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "FKF1", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" }, { "sample_id": "43", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toLL" }, { "sample_id": "45", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toLL" }, { "sample_id": "46", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toLL" }, { "sample_id": "47", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph6", "experiment_cond_name": "experiment_edwards_ph6toDD" }, { "sample_id": "48", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph12", "experiment_cond_name": "experiment_edwards_ph12toDD" }, { "sample_id": "49", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Wasilewski (WS)", "genotype": "Wild Type" }, "marker": "SEX4", "growth_cond_name": "growth_edwards_ph18", "experiment_cond_name": "experiment_edwards_ph18toDD" } ] } }, "biblio": { "principal": "Andrew J. Millar", "institution": "University of Edinburgh", "author": "Kieron D. Edwards" } }