{ "id": "13227435953899", "status": "described", "provenance": { "desc_version": "4", "data_version": "1", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T12:46:35" }, "modified": [ { "by": "Tomasz Zielinski", "date": "2014-10-17T15:29:39", "version": "4.1" }, { "by": "Tomasz Zielinski", "date": "2014-10-17T15:29:12", "version": "3.1" }, { "by": "SYSTEM USER", "date": "2014-09-15T16:54:11" }, { "by": "SYSTEM USER", "date": "2014-09-08T18:30:42" }, { "by": "Andrew Millar", "date": "2012-03-12T21:03:13" }, { "by": "Andrew Millar", "date": "2012-03-12T21:02:56" }, { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:05:23" }, { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:02:29" }, { "by": "Alexandra Pokhilko", "date": "2011-12-01T12:46:35" }, { "by": "Alexandra Pokhilko", "date": "2011-12-01T12:46:35" } ] }, "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": "13227435953899_dsc.2.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227435953899/13227435953899_dsc.2.xml", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:05:23" } }, { "id": "1", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "13227435953899_dsc.1.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227435953899/13227435953899_dsc.1.xml", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:02:29" } }, { "id": "0", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "13227435953899_dsc.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227435953899/13227435953899_dsc.xml", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T12:46:35" } } ] }, "pedro_file": { "id": "0", "file_type": "pedro file", "original_name": "pedro file", "version": [ { "id": "1", "file_type": "pedro file", "content_type": "text/xml", "original_name": "Mizoguchi_wt_lhycca1_LD_TOC1.xml", "local_name": "Mizoguchi_wt_lhycca1_LD_TOC1.1.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227435953899/Mizoguchi_wt_lhycca1_LD_TOC1.1.xml", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:05:23", "version": "2" } }, { "id": "0", "file_type": "pedro file", "content_type": "text/xml", "original_name": "Mizoguchi_wt_lhycca1_LD_TOC1.xml", "local_name": "Mizoguchi_wt_lhycca1_LD_TOC1.xml", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227435953899/Mizoguchi_wt_lhycca1_LD_TOC1.xml", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T12:46:35", "version": "1" } } ] }, "bibliographyFile": { "id": "0", "file_type": "BIBLIOGRAPHY", "original_name": "13227435953899_bibl.xml", "version": [ { "id": "4", "file_type": "BIBLIOGRAPHY", "content_type": "text/plain", "original_name": "13227435953899_bibl.xml", "local_name": "13227435953899_bibl.1.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/13227435953899/13227435953899_bibl.1.xml", "uploaded": { "by": "Tomasz Zielinski", "date": "2014-10-17T15:29:39", "version": "4" } }, { "id": "3", "file_type": "BIBLIOGRAPHY", "content_type": "text/plain", "original_name": "13227435953899_bibl.xml", "local_name": "13227435953899_bibl.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/13227435953899/13227435953899_bibl.xml", "uploaded": { "by": "Tomasz Zielinski", "date": "2014-10-17T15:29:12", "version": "3" } } ] }, "data_file": { "id": "0", "file_type": "data file", "original_name": "Mizoguchi2002_wt_lhycca1_16L8D_TOC1.xls", "version": { "id": "0", "file_type": "data file", "content_type": "application/vnd.ms-excel", "original_name": "Mizoguchi2002_wt_lhycca1_16L8D_TOC1.xls", "local_name": "Mizoguchi2002_wt_lhycca1_16L8D_TOC1.xls", "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227435953899/Mizoguchi2002_wt_lhycca1_16L8D_TOC1.xls", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:02:29", "version": "1" }, "parameter": [ { "name": "error_type", "value": "none" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "3" }, { "name": "time_col", "value": "1" } ] } }, "std_raw_file": { "id": "0", "file_type": "data file", "original_name": "STANDARD_RAWDATAFILE.txt", "version": { "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/13227435953899/STANDARD_RAWDATAFILE.txt", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:02:29" }, "parameter": [ { "name": "error_type", "value": "none" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "3" }, { "name": "time_col", "value": "1" } ] } }, "numeric_file": { "id": "0", "file_type": "data file", "original_name": "STANDARD_DATAFILE.txt", "version": { "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/13227435953899/STANDARD_DATAFILE.txt", "uploaded": { "by": "Alexandra Pokhilko", "date": "2011-12-01T13:02:29" }, "parameter": [ { "name": "error_type", "value": "none" }, { "name": "first_data_col", "value": "2" }, { "name": "first_data_row", "value": "3" }, { "name": "time_col", "value": "1" } ] } }, "security": { "owner": "andrew", "supervisor": "andrew", "allowedToRead": [ "edinburgh", "millar", "public", "robust", "timet" ], "allowedToWrite": [ "edinburgh", "millar" ] }, "open_access_info": { "grantedBy": "andrew", "grantedOn": "2012-03-12T21:03:13", "licence": "CC_BY", "comment": "System generated on 17-Oct-2014" }, "desc": { "experiment_type": "Literature data", "id": "13227435953899", "status": "described", "name": "Mizoguchi_wt_lhycca1_LD_TOC1", "purpose": "good quality 16:8 data, soil", "description": "Literature data from: 'LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis'\n\t by: Mizoguchi Tsuyoshi.\n\t \n\t lhy/cca1 mutant rhythms were extensively characterized in this paper (lhy was in Ler; cca1 in ws)", "pubmed_id": "12015970", "provenance": { "site": "Coupland", "author": "Mizoguchi Tsuyoshi", "start_date": "2002-05-02" }, "growth_condition": { "name": "soil", "medium": "Soil", "stratification": "3 days at 4C", "duration": "8.0", "comment": "temperature, light quality see\nPutterill, J., Robson, F., Lee, K., Simon, R., and Coupland, G. (1995). The CONSTANS gene of Arabidopsis promotes flowering and encodes a protein showing similarities to zinc finger transcription factors. Cell 80, 847–857", "temperature_conditions": { "label": "const. 20.0C", "env_conditions": { "type": "constant_temp", "label": "const. 20.0C", "duration": "8", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "8", "cycle_length": "24", "base_value": "20.0", "second_value": "20.0" } } }, "light_conditions": { "label": "W: LD 18:00:06:00", "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 18:00:06:00", "duration": "8", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "8", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "18:00" } } } } } }, "experimental_condition": { "name": "soil 18:6", "medium": "Soil", "duration": "1.0", "comment": "temperature, light quality see\nPutterill, J., Robson, F., Lee, K., Simon, R., and Coupland, G. (1995). The CONSTANS gene of Arabidopsis promotes flowering and encodes a protein showing similarities to zinc finger transcription factors. Cell 80, 847–857", "temperature_conditions": { "label": "const. 20.0C", "env_conditions": { "type": "constant_temp", "label": "const. 20.0C", "duration": "1", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "1", "cycle_length": "24", "base_value": "20.0", "second_value": "20.0" } } }, "light_conditions": { "label": "W: LD 18:00:06:00", "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 18:00:06:00", "duration": "1", "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" } } } } } }, "measurement": { "technique": "Northern Blot" }, "sample_preparation": { "method": "Northern blot" }, "samples": { "sample": [ { "sample_id": "1", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Landsberg (Ler)", "genotype": "Wild Type", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "soil", "experiment_cond_name": "soil 18:6", "ignored": "false" }, { "sample_id": "2", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "age": "0", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Landsberg (Ler)", "genotype": "cca1;lhy", "line": "unknown" }, "marker": "TOC1", "growth_cond_name": "soil", "experiment_cond_name": "soil 18:6", "ignored": "false" } ] } }, "pedro": { "@xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance", "@xsi:schemaLocation": "/Z:/communal/DataDescription/models/literature/model/full_literature.xsd", "name": "Mizoguchi_wt_lhycca1_LD_TOC1", "purpose": "good quality 16:8 data, soil", "description": "lhy/cca1 mutant rhythms were extensively characterized in this paper (lhy was in Ler; cca1 in ws)", "pubmed_id": "12015970", "provenance": { "pub_title": "LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis", "first_author": "Mizoguchi Tsuyoshi", "group": "Coupland", "pub_date": "2002-05-02" }, "growth_condition": { "name": "soil", "medium": "Soil", "stratification": "3 days at 4C", "duration": "8", "comment": "temperature, light quality see\nPutterill, J., Robson, F., Lee, K., Simon, R., and Coupland, G. (1995). The CONSTANS gene of Arabidopsis promotes flowering and encodes a protein showing similarities to zinc finger transcription factors. Cell 80, 847–857", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "20" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "18" } } } }, "experimental_condition": { "name": "soil 18:6", "medium": "Soil", "duration": "1", "comment": "temperature, light quality see\nPutterill, J., Robson, F., Lee, K., Simon, R., and Coupland, G. (1995). The CONSTANS gene of Arabidopsis promotes flowering and encodes a protein showing similarities to zinc finger transcription factors. Cell 80, 847–857", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "20" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "18" } } } }, "measurement": { "technique": "Northern Blot" }, "sample_preparation": { "method": "Northern blot" }, "samples": { "sample": [ { "sample_id": "1", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Landsberg (Ler)", "genotype": "Wild Type" }, "marker": "TOC1", "growth_cond_name": "soil", "experiment_cond_name": "soil 18:6" }, { "sample_id": "2", "sample_type": "seedling", "origin": "seedling", "growth_stage": "seedling", "genetic_info": { "species": "Arabidopsis thaliana", "background": "Landsberg (Ler)", "genotype": "cca1;lhy" }, "marker": "TOC1", "growth_cond_name": "soil", "experiment_cond_name": "soil 18:6" } ] } }, "biblio": { "principal": "Coupland G", "institution": "John Innes Centre", "author": [ "Mizoguchi T", "Wheatley K", "Hanzawa Y", "Wright L", "Mizoguchi M", "Song HR", "Carré IA" ], "curator": "Alexandra Pokhilko" } }