{
  "id": "13227396514409",
  "status": "described",
  "provenance": {
    "desc_version": "5",
    "data_version": "2",
    "uploaded": {
      "by": "Alexandra Pokhilko",
      "date": "2011-12-01T11:40:51"
    },
    "modified": [
      {
        "by": "Tomasz Zielinski",
        "date": "2014-10-17T15:53:43",
        "version": "5.2"
      },
      {
        "by": "Tomasz Zielinski",
        "date": "2014-10-17T15:53:24",
        "version": "4.2"
      },
      {
        "by": "SYSTEM USER",
        "date": "2014-09-15T16:54:00"
      },
      {
        "by": "SYSTEM USER",
        "date": "2014-09-08T18:30:37"
      },
      {
        "by": "Andrew Millar",
        "date": "2012-03-12T21:02:34"
      },
      {
        "by": "Andrew Millar",
        "date": "2012-03-12T21:01:38"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-02T14:21:31"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-02T12:10:00"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T13:40:00"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T13:26:52"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T13:11:06"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T11:44:19"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T11:41:40"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T11:40:51"
      },
      {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-01T11:40:51"
      }
    ]
  },
  "description_file": {
    "id": "0",
    "file_type": "description file",
    "original_name": "description file",
    "version": [
      {
        "id": "4",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13227396514409_dsc.4.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/13227396514409_dsc.4.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:40:00"
        }
      },
      {
        "id": "3",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13227396514409_dsc.3.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/13227396514409_dsc.3.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:26:52"
        }
      },
      {
        "id": "2",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13227396514409_dsc.2.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/13227396514409_dsc.2.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:11:06"
        }
      },
      {
        "id": "1",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13227396514409_dsc.1.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/13227396514409_dsc.1.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T11:41:40"
        }
      },
      {
        "id": "0",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13227396514409_dsc.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/13227396514409_dsc.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T11:40:51"
        }
      }
    ]
  },
  "pedro_file": {
    "id": "0",
    "file_type": "pedro file",
    "original_name": "pedro file",
    "version": [
      {
        "id": "2",
        "file_type": "pedro file",
        "content_type": "text/xml",
        "original_name": "Helfer2011_wt_LD_LUX_PRR9.xml",
        "local_name": "Helfer2011_wt_LD_LUX_PRR9.2.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/Helfer2011_wt_LD_LUX_PRR9.2.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:40:00",
          "version": "3"
        }
      },
      {
        "id": "1",
        "file_type": "pedro file",
        "content_type": "application/octet-stream",
        "original_name": "Helfer2011_wt_LD_LUX_PRR9.xml",
        "local_name": "Helfer2011_wt_LD_LUX_PRR9.1.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/Helfer2011_wt_LD_LUX_PRR9.1.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:11:06",
          "version": "2"
        }
      },
      {
        "id": "0",
        "file_type": "pedro file",
        "content_type": "text/xml",
        "original_name": "Helfer2011_wt_LD_LUX_PRR9.xml",
        "local_name": "Helfer2011_wt_LD_LUX_PRR9.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/Helfer2011_wt_LD_LUX_PRR9.xml",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T11:40:51",
          "version": "1"
        }
      }
    ]
  },
  "bibliographyFile": {
    "id": "0",
    "file_type": "BIBLIOGRAPHY",
    "original_name": "13227396514409_bibl.xml",
    "version": [
      {
        "id": "5",
        "file_type": "BIBLIOGRAPHY",
        "content_type": "text/plain",
        "original_name": "13227396514409_bibl.xml",
        "local_name": "13227396514409_bibl.1.xml",
        "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/13227396514409/13227396514409_bibl.1.xml",
        "uploaded": {
          "by": "Tomasz Zielinski",
          "date": "2014-10-17T15:53:43",
          "version": "5"
        }
      },
      {
        "id": "4",
        "file_type": "BIBLIOGRAPHY",
        "content_type": "text/plain",
        "original_name": "13227396514409_bibl.xml",
        "local_name": "13227396514409_bibl.xml",
        "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/13227396514409/13227396514409_bibl.xml",
        "uploaded": {
          "by": "Tomasz Zielinski",
          "date": "2014-10-17T15:53:24",
          "version": "4"
        }
      }
    ]
  },
  "data_file": {
    "id": "0",
    "file_type": "data file",
    "original_name": "Helfer2011_wt_LD_LUX_PRR9.xls",
    "version": [
      {
        "id": "1",
        "file_type": "data file",
        "content_type": "application/vnd.ms-excel",
        "original_name": "Helfer2011_wt_LD_LUX_PRR9.xls",
        "local_name": "Helfer2011_wt_LD_LUX_PRR9.1.xls",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/Helfer2011_wt_LD_LUX_PRR9.1.xls",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:26:52",
          "version": "2"
        },
        "parameter": [
          {
            "name": "error_type",
            "value": "none"
          },
          {
            "name": "first_data_col",
            "value": "2"
          },
          {
            "name": "first_data_row",
            "value": "3"
          },
          {
            "name": "time_col",
            "value": "1"
          }
        ]
      },
      {
        "id": "0",
        "file_type": "data file",
        "content_type": "application/vnd.ms-excel",
        "original_name": "Helfer2011_wt_LD_LUX_PRR9.xls",
        "local_name": "Helfer2011_wt_LD_LUX_PRR9.xls",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/Helfer2011_wt_LD_LUX_PRR9.xls",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T11:41:40",
          "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": "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/13227396514409/STANDARD_RAWDATAFILE.1.txt",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:26:52"
        },
        "parameter": [
          {
            "name": "error_type",
            "value": "none"
          },
          {
            "name": "first_data_col",
            "value": "2"
          },
          {
            "name": "first_data_row",
            "value": "3"
          },
          {
            "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/13227396514409/STANDARD_RAWDATAFILE.txt",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T11:41:40"
        },
        "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": "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/13227396514409/STANDARD_DATAFILE.1.txt",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T13:26:52"
        },
        "parameter": [
          {
            "name": "error_type",
            "value": "none"
          },
          {
            "name": "first_data_col",
            "value": "2"
          },
          {
            "name": "first_data_row",
            "value": "3"
          },
          {
            "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/13227396514409/STANDARD_DATAFILE.txt",
        "uploaded": {
          "by": "Alexandra Pokhilko",
          "date": "2011-12-01T11:41:40"
        },
        "parameter": [
          {
            "name": "error_type",
            "value": "none"
          },
          {
            "name": "first_data_col",
            "value": "2"
          },
          {
            "name": "first_data_row",
            "value": "3"
          },
          {
            "name": "time_col",
            "value": "1"
          }
        ]
      }
    ]
  },
  "user_file": {
    "id": "0",
    "file_type": "user file",
    "original_name": "Helfer_CurrBiol11.pdf",
    "version": {
      "id": "0",
      "file_type": "data file",
      "content_type": "application/pdf",
      "original_name": "Helfer_CurrBiol11.pdf",
      "local_name": "Helfer_CurrBiol11.pdf",
      "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13227396514409/Helfer_CurrBiol11.pdf",
      "uploaded": {
        "by": "Alexandra Pokhilko",
        "date": "2011-12-02T12:10:00"
      }
    }
  },
  "security": {
    "owner": "andrew",
    "supervisor": "andrew",
    "allowedToRead": [
      "edinburgh",
      "millar",
      "public",
      "robust",
      "timet"
    ],
    "allowedToWrite": [
      "edinburgh",
      "millar"
    ]
  },
  "open_access_info": {
    "grantedBy": "andrew",
    "grantedOn": "2012-03-12T21:02:34",
    "licence": "CC_BY",
    "comment": "System generated on 17-Oct-2014"
  },
  "desc": {
    "experiment_type": "Literature data",
    "id": "13227396514409",
    "status": "described",
    "name": "Helfer2011_wt_LD_LUX_PRR9",
    "purpose": "good quality gPCR data; 3%sucrose",
    "description": "Literature data from: 'LUX ARRHYTHMO encodes a nighttime repressor of circadian gene expression in the Arabidopsis core clock'\n\t    by: Helfer A.\n\t    \n\t    LUX and PRR9 expression in wild-type plants grown in LD",
    "pubmed_id": "21236673",
    "provenance": {
      "site": "Kay S",
      "author": "Helfer A",
      "start_date": "2011-01-25"
    },
    "growth_condition": {
      "name": "3% sugar 12:12",
      "medium": "Agar 1.5% MS 1 3% Sucrose",
      "stratification": "3 days at 4C",
      "duration": "10.0",
      "temperature_conditions": {
        "label": "const. 22.0C",
        "env_conditions": {
          "type": "constant_temp",
          "label": "const. 22.0C",
          "duration": "10",
          "env_day": {
            "type": "constant_temp",
            "label": "constant temperature",
            "duration": "10",
            "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": "80",
          "source": "LED",
          "env_conditions": {
            "type": "diurnal_light",
            "label": "LD 12:00:12:00",
            "duration": "10",
            "env_day": {
              "type": "diurnal_light",
              "label": "diurnal light",
              "duration": "10",
              "cycle_length": "24",
              "base_value": "0.0",
              "second_value": "100.0",
              "env_period": {
                "start_time": "0:00",
                "duration": "12:00"
              }
            }
          }
        }
      }
    },
    "experimental_condition": {
      "name": "12:12",
      "medium": "Agar 1.5% MS 1 3% Sucrose",
      "duration": "1.0",
      "temperature_conditions": {
        "label": "const. 22.0C",
        "env_conditions": {
          "type": "constant_temp",
          "label": "const. 22.0C",
          "duration": "1",
          "env_day": {
            "type": "constant_temp",
            "label": "constant temperature",
            "duration": "1",
            "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": "40",
          "source": "LED",
          "env_conditions": {
            "type": "diurnal_light",
            "label": "LD 12:00:12:00",
            "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": "12:00"
              }
            }
          }
        }
      }
    },
    "measurement": {
      "technique": "RT-PCR"
    },
    "sample_preparation": null,
    "samples": {
      "sample": [
        {
          "sample_id": "1",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "age": "0",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type",
            "line": "unknown"
          },
          "marker": "LUX",
          "growth_cond_name": "3% sugar 12:12",
          "experiment_cond_name": "12:12",
          "ignored": "false"
        },
        {
          "sample_id": "2",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "age": "0",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type",
            "line": "unknown"
          },
          "marker": "PRR9",
          "growth_cond_name": "3% sugar 12:12",
          "experiment_cond_name": "12:12",
          "ignored": "false"
        }
      ]
    }
  },
  "pedro": {
    "@xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance",
    "@xsi:schemaLocation": "/Z:/communal/DataDescription/models/literature/model/full_literature.xsd",
    "name": "Helfer2011_wt_LD_LUX_PRR9",
    "purpose": "good quality gPCR data; 3%sucrose",
    "description": "LUX and PRR9 expression in wild-type plants grown in LD",
    "pubmed_id": "21236673",
    "provenance": {
      "pub_title": "LUX ARRHYTHMO encodes a nighttime repressor of circadian gene expression in the Arabidopsis core clock",
      "first_author": "Helfer A",
      "group": "Kay S",
      "pub_date": "2011-01-25"
    },
    "growth_condition": {
      "name": "3% sugar 12:12",
      "medium": "Agar 1.5% MS 1 3% Sucrose",
      "stratification": "3 days at 4C",
      "duration": "10",
      "temperature_conditions": {
        "constant_temp": {
          "cycle_length": "24",
          "base_temp": "22"
        }
      },
      "light_conditions": {
        "light_channel": {
          "spectrum": "white",
          "intensity": "80",
          "source": "LED",
          "diurnal_light": {
            "cycle_length": "24",
            "start_time": "0",
            "duration": "12"
          }
        }
      }
    },
    "experimental_condition": {
      "name": "12:12",
      "medium": "Agar 1.5% MS 1 3% Sucrose",
      "duration": "1",
      "temperature_conditions": {
        "constant_temp": {
          "cycle_length": "24",
          "base_temp": "22"
        }
      },
      "light_conditions": {
        "light_channel": {
          "spectrum": "white",
          "intensity": "40",
          "source": "LED",
          "diurnal_light": {
            "cycle_length": "24",
            "start_time": "0",
            "duration": "12"
          }
        }
      }
    },
    "measurement": {
      "technique": "RT-PCR"
    },
    "sample_preparation": null,
    "samples": {
      "sample": [
        {
          "sample_id": "1",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type"
          },
          "marker": "LUX",
          "growth_cond_name": "3% sugar 12:12",
          "experiment_cond_name": "12:12"
        },
        {
          "sample_id": "2",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type"
          },
          "marker": "PRR9",
          "growth_cond_name": "3% sugar 12:12",
          "experiment_cond_name": "12:12"
        }
      ]
    }
  },
  "biblio": {
    "principal": "Kay SA",
    "institution": "University of California San Diego",
    "author": [
      "Helfer A",
      "Nusinow DA",
      "Chow BY",
      "Gehrke AR",
      "Bulyk ML"
    ],
    "curator": "Alexandra Pokhilko"
  }
}