{
  "id": "13228237712731",
  "status": "described",
  "provenance": {
    "desc_version": "4",
    "data_version": "1",
    "uploaded": {
      "by": "Robert Smith",
      "date": "2011-12-02T11:02:51"
    },
    "modified": [
      {
        "by": "Tomasz Zielinski",
        "date": "2014-10-17T15:59:39",
        "version": "4.1"
      },
      {
        "by": "Tomasz Zielinski",
        "date": "2014-10-17T15:59:17",
        "version": "3.1"
      },
      {
        "by": "SYSTEM USER",
        "date": "2014-09-15T16:54:22"
      },
      {
        "by": "SYSTEM USER",
        "date": "2014-09-08T18:30:49"
      },
      {
        "by": "Robert Smith",
        "date": "2013-09-13T13:27:52"
      },
      {
        "by": "Robert Smith",
        "date": "2013-09-12T17:17:14"
      },
      {
        "by": "Robert Smith",
        "date": "2013-09-12T17:16:29"
      },
      {
        "by": "Robert Smith",
        "date": "2011-12-14T16:12:26"
      },
      {
        "by": "Robert Smith",
        "date": "2011-12-02T11:03:11"
      },
      {
        "by": "Robert Smith",
        "date": "2011-12-02T11:03:03"
      },
      {
        "by": "Robert Smith",
        "date": "2011-12-02T11:02:51"
      },
      {
        "by": "Robert Smith",
        "date": "2011-12-02T11:02:51"
      }
    ]
  },
  "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": "13228237712731_dsc.2.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/13228237712731_dsc.2.xml",
        "uploaded": {
          "by": "Robert Smith",
          "date": "2013-09-12T17:16:29"
        }
      },
      {
        "id": "1",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13228237712731_dsc.1.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/13228237712731_dsc.1.xml",
        "uploaded": {
          "by": "Robert Smith",
          "date": "2011-12-02T11:03:03"
        }
      },
      {
        "id": "0",
        "file_type": "description file",
        "content_type": "text/xml",
        "original_name": "description file",
        "local_name": "13228237712731_dsc.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/13228237712731_dsc.xml",
        "uploaded": {
          "by": "Robert Smith",
          "date": "2011-12-02T11:02:51"
        }
      }
    ]
  },
  "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": "floweringdataprotein.xml",
        "local_name": "floweringdataprotein.1.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/floweringdataprotein.1.xml",
        "uploaded": {
          "by": "Robert Smith",
          "date": "2013-09-12T17:16:29",
          "version": "2"
        }
      },
      {
        "id": "0",
        "file_type": "pedro file",
        "content_type": "application/octet-stream",
        "original_name": "floweringdataprotein.xml",
        "local_name": "floweringdataprotein.xml",
        "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/floweringdataprotein.xml",
        "uploaded": {
          "by": "Robert Smith",
          "date": "2011-12-02T11:02:51",
          "version": "1"
        }
      }
    ]
  },
  "bibliographyFile": {
    "id": "0",
    "file_type": "BIBLIOGRAPHY",
    "original_name": "13228237712731_bibl.xml",
    "version": [
      {
        "id": "4",
        "file_type": "BIBLIOGRAPHY",
        "content_type": "text/plain",
        "original_name": "13228237712731_bibl.xml",
        "local_name": "13228237712731_bibl.1.xml",
        "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/13228237712731/13228237712731_bibl.1.xml",
        "uploaded": {
          "by": "Tomasz Zielinski",
          "date": "2014-10-17T15:59:39",
          "version": "4"
        }
      },
      {
        "id": "3",
        "file_type": "BIBLIOGRAPHY",
        "content_type": "text/plain",
        "original_name": "13228237712731_bibl.xml",
        "local_name": "13228237712731_bibl.xml",
        "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/13228237712731/13228237712731_bibl.xml",
        "uploaded": {
          "by": "Tomasz Zielinski",
          "date": "2014-10-17T15:59:17",
          "version": "3"
        }
      }
    ]
  },
  "data_file": {
    "id": "0",
    "file_type": "data file",
    "original_name": "floweringdataprotein.xls",
    "version": {
      "id": "0",
      "file_type": "data file",
      "content_type": "application/vnd.ms-excel",
      "original_name": "floweringdataprotein.xls",
      "local_name": "floweringdataprotein.xls",
      "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/floweringdataprotein.xls",
      "uploaded": {
        "by": "Robert Smith",
        "date": "2011-12-02T11:03:03",
        "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": "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/13228237712731/STANDARD_RAWDATAFILE.txt",
      "uploaded": {
        "by": "Robert Smith",
        "date": "2011-12-02T11:03:03"
      },
      "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": "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/13228237712731/STANDARD_DATAFILE.txt",
      "uploaded": {
        "by": "Robert Smith",
        "date": "2011-12-02T11:03:03"
      },
      "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": "song2012.pdf",
    "version": {
      "id": "0",
      "file_type": "data file",
      "content_type": "application/pdf",
      "original_name": "song2012.pdf",
      "local_name": "song2012.pdf",
      "local_path": "/disk/data/robust/prod-biodare/Robust/Storage/13228237712731/song2012.pdf",
      "uploaded": {
        "by": "Robert Smith",
        "date": "2013-09-13T13:27:52"
      }
    }
  },
  "security": {
    "owner": "robert",
    "supervisor": "karen",
    "allowedToRead": [
      "edinburgh",
      "halliday",
      "millar",
      "public",
      "robust"
    ],
    "allowedToWrite": [
      "halliday",
      "millar"
    ]
  },
  "open_access_info": {
    "grantedBy": "karen",
    "grantedOn": "2013-09-13T13:27:52",
    "licence": "CC_BY",
    "comment": "System generated on 17-Oct-2014"
  },
  "desc": {
    "experiment_type": "Literature data",
    "id": "13228237712731",
    "status": "described",
    "name": "Song et al. (2012); WT, fkf1, COox, COox;fkf1 and COoxCDF1ox in SD and LD at 22oC.",
    "purpose": "To investigate the roles of CDF1 and FKF1 in the Arabidopsis flowering time system.",
    "description": "Literature data from: 'FKF1 conveys timing information for CONSTANS stabilization in photoperiodic flowering'\n\t    by: Song, Y.H..\n\t    \n\t    CDF1 and FKF1 have previously been shown to regulate CO mRNA. This data highlights that they also play a role with FT mRNA, a direct target of CO, that is crucial in determining the photoperiodic-specific flowering of Arabidopsis.",
    "pubmed_id": "000000000",
    "provenance": {
      "site": "Imaizumi",
      "author": "Song, Y.H.",
      "start_date": "2012-05-25"
    },
    "growth_condition": [
      {
        "name": "growth_song_SD",
        "medium": "Agar 3% sucrose",
        "stratification": "3 days at 4C",
        "duration": "9.0",
        "temperature_conditions": {
          "label": "const. 22.0C",
          "env_conditions": {
            "type": "constant_temp",
            "label": "const. 22.0C",
            "duration": "9",
            "env_day": {
              "type": "constant_temp",
              "label": "constant temperature",
              "duration": "9",
              "cycle_length": "24",
              "base_value": "22.0",
              "second_value": "22.0"
            }
          }
        },
        "light_conditions": {
          "label": "W: LD 08:00:16:00",
          "light_channel": {
            "spectrum": "white",
            "intensity": "180",
            "source": "tube",
            "env_conditions": {
              "type": "diurnal_light",
              "label": "LD 08:00:16:00",
              "duration": "9",
              "env_day": {
                "type": "diurnal_light",
                "label": "diurnal light",
                "duration": "9",
                "cycle_length": "24",
                "base_value": "0.0",
                "second_value": "100.0",
                "env_period": {
                  "start_time": "0:00",
                  "duration": "8:00"
                }
              }
            }
          }
        }
      },
      {
        "name": "growth_song_LD",
        "medium": "Agar 3% sucrose",
        "stratification": "3 days at 4C",
        "duration": "9.0",
        "temperature_conditions": {
          "label": "const. 22.0C",
          "env_conditions": {
            "type": "constant_temp",
            "label": "const. 22.0C",
            "duration": "9",
            "env_day": {
              "type": "constant_temp",
              "label": "constant temperature",
              "duration": "9",
              "cycle_length": "24",
              "base_value": "22.0",
              "second_value": "22.0"
            }
          }
        },
        "light_conditions": {
          "label": "W: LD 16:00:08:00",
          "light_channel": {
            "spectrum": "white",
            "intensity": "90",
            "source": "tube",
            "env_conditions": {
              "type": "diurnal_light",
              "label": "LD 16:00:08:00",
              "duration": "9",
              "env_day": {
                "type": "diurnal_light",
                "label": "diurnal light",
                "duration": "9",
                "cycle_length": "24",
                "base_value": "0.0",
                "second_value": "100.0",
                "env_period": {
                  "start_time": "0:00",
                  "duration": "16:00"
                }
              }
            }
          }
        }
      }
    ],
    "experimental_condition": [
      {
        "name": "experiment_song_SD",
        "medium": "Agar 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 08:00:16:00",
          "light_channel": {
            "spectrum": "white",
            "intensity": "180",
            "source": "tube",
            "env_conditions": {
              "type": "diurnal_light",
              "label": "LD 08:00:16:00",
              "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": "8:00"
                }
              }
            }
          }
        }
      },
      {
        "name": "experiment_song_LD",
        "medium": "Agar 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 16:00:08:00",
          "light_channel": {
            "spectrum": "white",
            "intensity": "90",
            "source": "tube",
            "env_conditions": {
              "type": "diurnal_light",
              "label": "LD 16:00:08:00",
              "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": "16:00"
                }
              }
            }
          }
        }
      }
    ],
    "measurement": {
      "technique": "Northern Blot",
      "equipment": "Unknown",
      "description": "Literature data from: ''\n\t    by: .\n\t    \n\t    Unknown currently."
    },
    "sample_preparation": {
      "method": "Unknown currently. CDF1 protein levels were normalized against FKF1 levels to give relative abundances in SD and LD."
    },
    "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": "FKF1",
          "growth_cond_name": "growth_song_SD",
          "experiment_cond_name": "experiment_song_SD",
          "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": "FKF1",
          "growth_cond_name": "growth_song_LD",
          "experiment_cond_name": "experiment_song_LD",
          "ignored": "false"
        },
        {
          "sample_id": "3",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "age": "0",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type",
            "line": "unknown"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_SD",
          "experiment_cond_name": "experiment_song_SD",
          "ignored": "false"
        },
        {
          "sample_id": "4",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "age": "0",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type",
            "line": "unknown"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_LD",
          "experiment_cond_name": "experiment_song_LD",
          "ignored": "false"
        },
        {
          "sample_id": "5",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "age": "0",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "fkf1-2",
            "line": "unknown"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_SD",
          "experiment_cond_name": "experiment_song_SD",
          "ignored": "false"
        },
        {
          "sample_id": "6",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "age": "0",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "fkf1-2",
            "line": "unknown"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_LD",
          "experiment_cond_name": "experiment_song_LD",
          "ignored": "false"
        }
      ]
    }
  },
  "pedro": {
    "@xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance",
    "@xsi:schemaLocation": "/Z:/communal/DataDescription/models/literature/model/full_literature.xsd",
    "name": "Song et al. (2012); WT, fkf1, COox, COox;fkf1 and COoxCDF1ox in SD and LD at 22oC.",
    "purpose": "To investigate the roles of CDF1 and FKF1 in the Arabidopsis flowering time system.",
    "description": "CDF1 and FKF1 have previously been shown to regulate CO mRNA. This data highlights that they also play a role with FT mRNA, a direct target of CO, that is crucial in determining the photoperiodic-specific flowering of Arabidopsis.",
    "pubmed_id": "000000000",
    "provenance": {
      "pub_title": "FKF1 conveys timing information for CONSTANS stabilization in photoperiodic flowering",
      "first_author": "Song, Y.H.",
      "group": "Imaizumi",
      "pub_date": "2012-05-25"
    },
    "growth_condition": [
      {
        "name": "growth_song_SD",
        "medium": "Agar 3% sucrose",
        "stratification": "3 days at 4C",
        "duration": "9",
        "temperature_conditions": {
          "constant_temp": {
            "cycle_length": "24",
            "base_temp": "22"
          }
        },
        "light_conditions": {
          "light_channel": {
            "spectrum": "white",
            "intensity": "180",
            "source": "tube",
            "diurnal_light": {
              "cycle_length": "24",
              "start_time": "0",
              "duration": "8"
            }
          }
        }
      },
      {
        "name": "growth_song_LD",
        "medium": "Agar 3% sucrose",
        "stratification": "3 days at 4C",
        "duration": "9",
        "temperature_conditions": {
          "constant_temp": {
            "cycle_length": "24",
            "base_temp": "22"
          }
        },
        "light_conditions": {
          "light_channel": {
            "spectrum": "white",
            "intensity": "90",
            "source": "tube",
            "diurnal_light": {
              "cycle_length": "24",
              "start_time": "0",
              "duration": "16"
            }
          }
        }
      }
    ],
    "experimental_condition": [
      {
        "name": "experiment_song_SD",
        "medium": "Agar 3% sucrose",
        "duration": "1",
        "temperature_conditions": {
          "constant_temp": {
            "cycle_length": "24",
            "base_temp": "22"
          }
        },
        "light_conditions": {
          "light_channel": {
            "spectrum": "white",
            "intensity": "180",
            "source": "tube",
            "diurnal_light": {
              "cycle_length": "24",
              "start_time": "0",
              "duration": "8"
            }
          }
        }
      },
      {
        "name": "experiment_song_LD",
        "medium": "Agar 3% sucrose",
        "duration": "1",
        "temperature_conditions": {
          "constant_temp": {
            "cycle_length": "24",
            "base_temp": "22"
          }
        },
        "light_conditions": {
          "light_channel": {
            "spectrum": "white",
            "intensity": "90",
            "source": "tube",
            "diurnal_light": {
              "cycle_length": "24",
              "start_time": "0",
              "duration": "16"
            }
          }
        }
      }
    ],
    "measurement": {
      "technique": "Northern Blot",
      "equipment": "Unknown",
      "description": "Unknown currently."
    },
    "sample_preparation": {
      "method": "Unknown currently. CDF1 protein levels were normalized against FKF1 levels to give relative abundances in SD and LD."
    },
    "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": "FKF1",
          "growth_cond_name": "growth_song_SD",
          "experiment_cond_name": "experiment_song_SD"
        },
        {
          "sample_id": "2",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type"
          },
          "marker": "FKF1",
          "growth_cond_name": "growth_song_LD",
          "experiment_cond_name": "experiment_song_LD"
        },
        {
          "sample_id": "3",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_SD",
          "experiment_cond_name": "experiment_song_SD"
        },
        {
          "sample_id": "4",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "Wild Type"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_LD",
          "experiment_cond_name": "experiment_song_LD"
        },
        {
          "sample_id": "5",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "fkf1-2"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_SD",
          "experiment_cond_name": "experiment_song_SD"
        },
        {
          "sample_id": "6",
          "sample_type": "seedling",
          "origin": "seedling",
          "growth_stage": "seedling",
          "genetic_info": {
            "species": "Arabidopsis thaliana",
            "background": "Columbia (Col)",
            "genotype": "fkf1-2"
          },
          "marker": "CDF1",
          "growth_cond_name": "growth_song_LD",
          "experiment_cond_name": "experiment_song_LD"
        }
      ]
    }
  },
  "biblio": {
    "principal": "Imaizumi T",
    "institution": "University of Washington",
    "author": [
      "Song YH",
      "Smith RW",
      "To BJ",
      "Millar AJ"
    ],
    "curator": "Robert Smith"
  }
}