metadata-example.json

{
  "name": "LADAF-2020-27_kidney_left_central-column_6.05um_bm05",
  "dataset_type": "zoom",
  "voi": "central-column",
  "data": {
    "shape": [3795, 3795, 7540],
    "voxel_size_um": 6.05
  },
  "sample": {
    "organ": "kidney",
    "organ_context": "left",
    "post_mortem_interval_hours": null,
    "fixation_method": null,
    "fixation_medium": null,
    "organ_infilled": "n/a",
    "stabilisation_medium": null,
    "degassing_method": null,
    "scan_solvent": null,
    "scan_solvent_concentration": null,
    "scan_temperature": null
  },
  "donor": {
    "id": "LADAF-2020-27",
    "age": 94,
    "sex": "F",
    "weight": 45.0,
    "height": 140.0,
    "cause_of_death": null,
    "date_of_death": "2020-06-11",
    "medical_history": "right sylvian and right cerebellar stroke, Cognitive disorders of vascular origin, Depressive syndrome, Rhythmic and hypertensive heart disease (AF), Micro-crystalline arthritis (gout), Right lung pneumopathy (3 years before death), Left cataract, Left temporal squamous cell carcinoma.",
    "diabetes": null,
    "hypertension": null,
    "smoker": null
  },
  "scan": {
    "date": "2020-07-13",
    "beamline": "BM05",
    "energy": 89.0,
    "current_start": 200.0,
    "filling_mode": null,
    "n_projections": 6000,
    "n_ref": 0,
    "n_dark": 400,
    "latency_time": 0.01,
    "exposure_time": 0.04,
    "accumulation_n_frames": 4,
    "scan_type": "zseries",
    "scan_range": 360.0,
    "n_scans": 13,
    "acquisition": "half",
    "z_step": 3.5,
    "scan_time": 5.0,
    "filters": ["Al 2mm", "Mo 0.1mm", "SiO2 60mm rods 12x5mm"],
    "scintillator": "LuAG:Ce 2000um",
    "optic": "DZoom",
    "distance_sample_detector": 3475.0,
    "sensor_name": "PCO edge 4.2 CLHS",
    "sensor_mode": "rolling shutter",
    "sensor_magnification": 1.0,
    "sensor_roi_x_size": 688,
    "sensor_roi_y_size": 688,
    "pixel_size": 6.05,
    "xray_magnification": null,
    "technique": "Hierarchical Phase-Contrast Tomography (HiP-CT)",
    "experiment_type": "Tomography"
  },
  "proposal": {
    "proposal_number": "md1252",
    "title": "Multiscale Quantification of Covid-19's impact on lung vasculature from whole lobe to alveolar/microvascular scales",
    "proposers": [
      "Peter Lee",
      "Paul Tafforeau",
      "Danny Jonigk",
      "Maximilian Ackermann",
      "Mark P. Kuhnel",
      "Elodie Boller",
      "Willi Wagner"
    ]
  },
  "registration": {
    "source_dataset": "LADAF-2020-27_kidney_left_central-column_6.05um_bm05",
    "target_dataset": "LADAF-2020-27_kidney_left_complete-organ_25.08um_bm05",
    "translation": [1015.647710639054, 1216.3270767034828, 906.143929656302],
    "rotation": -0.09977031883926162,
    "scale": 0.24122780183119433
  },
  "citation": {
    "title": "Zoom (central-column) at 6.05um of the kidney of donor LADAF-2020-27, scanned at ESRF on beamline BM05.",
    "contributors": [
      {
        "name": "Claire Walsh",
        "roles": ["Conceptualization", "Funding acquisition"]
      },
      {
        "name": "Danny Jonigk",
        "roles": ["Funding acquisition", "Investigation"]
      },
      {
        "name": "David Stansby",
        "roles": ["Data curation", "Software"]
      },
      {
        "name": "Elodie Boller",
        "roles": ["Funding acquisition", "Investigation"]
      },
      {
        "name": "Guillaume Gaisne",
        "roles": ["Data curation", "Software"]
      },
      {
        "name": "Hector Dejea I Velardo",
        "roles": ["Data curation", "Investigation"]
      },
      {
        "name": "Joanna Purzycka",
        "roles": ["Data curation"]
      },
      {
        "name": "Joseph Brunet",
        "roles": ["Data curation", "Investigation", "Software"]
      },
      {
        "name": "Mark P. Kuhnel",
        "roles": ["Funding acquisition"]
      },
      {
        "name": "Maximilian Ackermann",
        "roles": ["Funding acquisition"]
      },
      {
        "name": "Paul Tafforeau",
        "roles": ["Conceptualization", "Funding acquisition", "Investigation"]
      },
      {
        "name": "Peter Lee",
        "roles": ["Conceptualization", "Funding acquisition", "Investigation"]
      },
      {
        "name": "Theresa Urban",
        "roles": ["Data curation", "Investigation", "Software"]
      },
      {
        "name": "Willi Wagner",
        "roles": ["Funding acquisition", "Investigation"]
      }
    ],
    "doi": "10.15151/ESRF-DC-572183366",
    "author_list": [
      "The Human Organ Atlas Collaboration",
      "Danny Jonigk",
      "David Stansby",
      "Elodie Boller",
      "Guillaume Gaisne",
      "Hector Dejea I Velardo",
      "Joanna Purzycka",
      "Joseph Brunet",
      "Mark P. Kuhnel",
      "Maximilian Ackermann",
      "Paul Tafforeau",
      "Theresa Urban",
      "Willi Wagner",
      "Claire Walsh",
      "Peter Lee"
    ]
  }
}