{
    "analyses": [],
    "analysis_methods": [],
    "analysis_method_supporting_files": [],
    "studies": [
        {
            "alias": "STUDY_1",
            "title": "Example study: whole-genome sequencing of a bone cancer patient",
            "description": "Illustrative example submission from the GHGA documentation. Tumour (case) and matched normal (control) samples of one patient with a bone tumour were whole-genome sequenced.",
            "types": [
                "CANCER_GENOMICS"
            ],
            "affiliations": [
                "German Cancer Research Center (DKFZ)"
            ]
        }
    ],
    "individuals": [
        {
            "alias": "Patient_1",
            "diagnosis_ids": [
                "ICD-10: C40"
            ],
            "diagnosis_terms": [
                "Malignant neoplasm of bone and articular cartilage of limbs"
            ],
            "sex": "MALE"
        }
    ],
    "individual_supporting_files": [],
    "samples": [
        {
            "alias": "Sample_1_T",
            "individual": "Patient_1",
            "name": "Sample_1_T",
            "biological_replicate": 1,
            "description": "Case sample for Patient_1",
            "disease_or_healthy": "DISEASE",
            "case_control_status": "CASE",
            "biospecimen_age_at_sampling": "UNKNOWN"
        },
        {
            "alias": "Sample_1_C",
            "individual": "Patient_1",
            "name": "Sample_1_C",
            "biological_replicate": 1,
            "description": "Control sample for Patient_1",
            "disease_or_healthy": "HEALTHY",
            "case_control_status": "CONTROL",
            "biospecimen_age_at_sampling": "UNKNOWN"
        },
        {
            "alias": "Sample_2_T",
            "individual": "Patient_1",
            "name": "Sample_2_T",
            "biological_replicate": 2,
            "description": "Case sample for Patient_1",
            "disease_or_healthy": "DISEASE",
            "case_control_status": "CASE",
            "biospecimen_age_at_sampling": "UNKNOWN"
        },
        {
            "alias": "Sample_2_C",
            "individual": "Patient_1",
            "name": "Sample_2_C",
            "biological_replicate": 2,
            "description": "Control sample for Patient_1",
            "disease_or_healthy": "HEALTHY",
            "case_control_status": "CONTROL",
            "biospecimen_age_at_sampling": "UNKNOWN"
        }
    ],
    "experiment_methods": [
        {
            "alias": "Method_1",
            "name": "WGS on Illumina HiSeq X Ten",
            "description": "WGS performed on Illumina HiSeq X Ten",
            "type": "WGS",
            "library_type": "WGS",
            "library_selection_methods": [
                "RANDOM_METHOD"
            ],
            "library_preparation": "PCR-free library preparation",
            "instrument_model": "HISEQ_X_TEN",
            "sequencing_layout": "SE"
        }
    ],
    "experiment_method_supporting_files": [],
    "experiments": [
        {
            "alias": "Exp_1",
            "experiment_method": "Method_1",
            "title": "WGS of Sample_1_T",
            "description": "WGS performed on Illumina HiSeq X Ten",
            "sample": "Sample_1_T"
        },
        {
            "alias": "Exp_2",
            "experiment_method": "Method_1",
            "title": "WGS of Sample_1_C",
            "description": "WGS performed on Illumina HiSeq X Ten",
            "sample": "Sample_1_C"
        },
        {
            "alias": "Exp_3",
            "experiment_method": "Method_1",
            "title": "WGS of Sample_2_T",
            "description": "WGS performed on Illumina HiSeq X Ten",
            "sample": "Sample_2_T"
        },
        {
            "alias": "Exp_4",
            "experiment_method": "Method_1",
            "title": "WGS of Sample_2_C",
            "description": "WGS performed on Illumina HiSeq X Ten",
            "sample": "Sample_2_C"
        }
    ],
    "research_data_files": [
        {
            "alias": "my_first_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 1,
            "sequencing_lane_id": "4",
            "experiments": [
                "Exp_1"
            ],
            "name": "my_first_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_second_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 2,
            "sequencing_lane_id": "4",
            "experiments": [
                "Exp_1"
            ],
            "name": "my_second_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_third_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 1,
            "sequencing_lane_id": "5",
            "experiments": [
                "Exp_2"
            ],
            "name": "my_third_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_fourth_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 2,
            "sequencing_lane_id": "5",
            "experiments": [
                "Exp_2"
            ],
            "name": "my_fourth_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_fifth_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 1,
            "sequencing_lane_id": "2",
            "experiments": [
                "Exp_3"
            ],
            "name": "my_fifth_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_sixth_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 2,
            "sequencing_lane_id": "2",
            "experiments": [
                "Exp_3"
            ],
            "name": "my_sixth_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_seventh_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 1,
            "sequencing_lane_id": "6",
            "experiments": [
                "Exp_4"
            ],
            "name": "my_seventh_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        },
        {
            "alias": "my_eighth_file.fastq.gz",
            "format": "FASTQ",
            "technical_replicate": 2,
            "sequencing_lane_id": "6",
            "experiments": [
                "Exp_4"
            ],
            "name": "my_eighth_file.fastq.gz",
            "dataset": "DS_WGS",
            "included_in_submission": true
        }
    ],
    "process_data_files": [],
    "datasets": [
        {
            "alias": "DS_WGS",
            "title": "Bone cancer WGS dataset",
            "description": "Whole-genome sequencing reads (FASTQ) of tumour and matched normal samples of one bone cancer patient.",
            "types": [
                "WGS"
            ],
            "data_access_policy": "DKFZ_DAP",
            "study": "STUDY_1"
        }
    ],
    "data_access_policies": [
        {
            "alias": "DKFZ_DAP",
            "name": "Example data access policy",
            "description": "Access for research on bone cancer, granted by the DKFZ Data Access Committee.",
            "policy_text": "Data may only be used for research on bone cancer. Requests are reviewed by the Data Access Committee; a Data Transfer Agreement must be signed before access is granted.",
            "data_use_permission_term": "DISEASE_SPECIFIC_RESEARCH",
            "data_use_permission_id": "DUO:0000007",
            "data_access_committee": "DKFZ_DAC"
        }
    ],
    "data_access_committees": [
        {
            "alias": "DKFZ_DAC",
            "email": "data-access-committee@example.org",
            "institute": "German Cancer Research Center (DKFZ)"
        }
    ],
    "publications": []
}