{
    "$schema": "https://raw.githubusercontent.com/BfArM-MVH/MVGenomseq/refs/tags/v1.1.9/GRZ/grz-schema.json",
    "submission": {
        "submissionDate": "2024-11-08",
        "submissionType": "initial",
        "tanG": "a2b6c3d9e8f7123456789abcdef0123456789abcdef0123456789abcdef01234",
        "localCaseId": "CASE12345",
        "coverageType": "GKV",
        "submitterId": "123456789",
        "genomicDataCenterId": "GRZM00123",
        "clinicalDataNodeId": "KDKM00456",
        "diseaseType": "oncological",
        "genomicStudyType": "single",
        "genomicStudySubtype": "tumor-only",
        "labName": "Genomics Lab Humangenetik MRI"
    },
    "donors": [
        {
            "donorPseudonym": "a2b6c3d9e8f7123456789abcdef0123456789abcdef0123456789abcdef01234",
            "gender": "other",
            "relation": "index",
            "mvConsent": {
                "presentationDate": "2023-06-10",
                "version": "1.0",
                "scope": [
                    {
                        "type": "permit",
                        "date": "2023-06-10",
                        "domain": "mvSequencing"
                    }
                ]
            },
            "researchConsents": [
                {
                    "schemaVersion": "2025.0.1",
                    "presentationDate": "2023-06-10",
                    "scope": {}
                }
            ],
            "labData": [
                {
                    "labDataName": "Tumor DNA sample",
                    "tissueOntology": {
                        "name": "UBERON",
                        "version": "1.5"
                    },
                    "tissueTypeId": "UBERON:0002112",
                    "tissueTypeName": "tumor",
                    "sampleDate": "2023-06-21",
                    "sampleConservation": "cryo-frozen",
                    "sequenceType": "dna",
                    "sequenceSubtype": "somatic",
                    "fragmentationMethod": "enzymatic",
                    "libraryType": "panel",
                    "libraryPrepKit": "Nextera Rapid Capture Exome",
                    "libraryPrepKitManufacturer": "Illumina",
                    "sequencerModel": "NovaSeq 6000",
                    "sequencerManufacturer": "Illumina",
                    "kitName": "KAPA Hyper Prep",
                    "kitManufacturer": "Kapa Biosystems",
                    "enrichmentKitManufacturer": "other",
                    "enrichmentKitDescription": "KAPA Hyper Prep Kit",
                    "barcode": "NA67891",
                    "sequencingLayout": "paired-end",
                    "tumorCellCount": [
                        {
                            "count": 75,
                            "method": "bioinformatics"
                        }
                    ],
                    "sequenceData": {
                        "bioinformaticsPipelineName": "DNASeq_Pipeline_XYZ",
                        "bioinformaticsPipelineVersion": "v3.4.1",
                        "referenceGenome": "GRCh37",
                        "percentBasesAboveQualityThreshold": {
                                "minimumQuality": 30,
                                "percent": 85
                        },
                        "meanDepthOfCoverage": 200,
                        "minCoverage": 100,
                        "targetedRegionsAboveMinCoverage": 0.8,
                        "nonCodingVariants": true,
                        "callerUsed": [
                            {
                                "name": "GATK",
                                "version": "4.2.0"
                            }
                        ],
                        "files": [
                            {
                                "filePath": "donor_001/NIST7035_1_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "db53fb6c3bf25292880245e5375d636cc711a4e2c7226302cb599e341f9ce5a7",
                                "fileSizeInBytes": 3343564,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "NIST7035",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/NIST7035_1_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "e40aa2eadbbdbae958258a79d1f6c005a539f878466539f1e6d98a38faddca14",
                                "fileSizeInBytes": 3454821,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "NIST7035",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/NIST7035_2_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "21eb0497dbae3e74268d64ac543c2ad145d66bf044da5d0b0b021ffed978a792",
                                "fileSizeInBytes": 3414245,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "NIST7035",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/NIST7035_2_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "be172173202fe25b0e2f9ed049f3e945b089255a108e09e519453c6757a0b860",
                                "fileSizeInBytes": 3518760,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "NIST7035",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/NIST7086_1_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "4274af6f6f3bf401560ed2ec36898fb1e22a0edd1210c4b0baddacca1b2eb8d2",
                                "fileSizeInBytes": 3434391,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "NIST7086",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/NIST7086_1_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "3eeb3bc967504cb5da80ac7f110b3cc7d2d22c65fcd110e893fdabbae0b3c455",
                                "fileSizeInBytes": 3549275,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "NIST7086",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/NIST7086_2_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "b91f63257559cfdad340379c501e86a433b2e4f18283afdc86604716cd0e0287",
                                "fileSizeInBytes": 3512101,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "NIST7086",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/NIST7086_2_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "5d8651810559e24351fc33e7980b24352cf5348a3bd7de252d743e336f31fa99",
                                "fileSizeInBytes": 3624408,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "NIST7086",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/2_NIST7035_1_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "db53fb6c3bf25292880245e5375d636cc711a4e2c7226302cb599e341f9ce5a7",
                                "fileSizeInBytes": 3343564,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "2_NIST7035",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/2_NIST7035_1_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "e40aa2eadbbdbae958258a79d1f6c005a539f878466539f1e6d98a38faddca14",
                                "fileSizeInBytes": 3454821,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "2_NIST7035",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/2_NIST7035_2_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "21eb0497dbae3e74268d64ac543c2ad145d66bf044da5d0b0b021ffed978a792",
                                "fileSizeInBytes": 3414245,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "2_NIST7035",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/2_NIST7035_2_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "be172173202fe25b0e2f9ed049f3e945b089255a108e09e519453c6757a0b860",
                                "fileSizeInBytes": 3518760,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "2_NIST7035",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/2_NIST7086_1_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "4274af6f6f3bf401560ed2ec36898fb1e22a0edd1210c4b0baddacca1b2eb8d2",
                                "fileSizeInBytes": 3434391,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "2_NIST7086",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/2_NIST7086_1_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "3eeb3bc967504cb5da80ac7f110b3cc7d2d22c65fcd110e893fdabbae0b3c455",
                                "fileSizeInBytes": 3549275,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "2_NIST7086",
                                "laneId": "1"
                            },
                            {
                                "filePath": "donor_001/2_NIST7086_2_R1.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "b91f63257559cfdad340379c501e86a433b2e4f18283afdc86604716cd0e0287",
                                "fileSizeInBytes": 3512101,
                                "readOrder": "R1",
                                "readLength": 101,
                                "flowcellId": "2_NIST7086",
                                "laneId": "2"
                            },
                            {
                                "filePath": "donor_001/2_NIST7086_2_R2.fastq.gz",
                                "fileType": "fastq",
                                "checksumType": "sha256",
                                "fileChecksum": "5d8651810559e24351fc33e7980b24352cf5348a3bd7de252d743e336f31fa99",
                                "fileSizeInBytes": 3624408,
                                "readOrder": "R2",
                                "readLength": 101,
                                "flowcellId": "2_NIST7086",
                                "laneId": "2"
                            },                
                            {
                                "filePath": "donor_001/panel.bed.gz",
                                "fileType": "bed",
                                "checksumType": "sha256",
                                "fileChecksum": "69331dfa69eb89e64178a055a225e4127921a27e7646143c451cc81a7c16bb7e",
                                "fileSizeInBytes": 11841
                            },
                            {
                                "filePath": "donor_001/panel_vcf.vcf",
                                "fileType": "vcf",
                                "checksumType": "sha256",
                                "fileChecksum": "e377833f186c015374a1c642b5ecc3b1e49c9f694701272b456d92660845a4b1",
                                "fileSizeInBytes": 37893
                            }
                        ]
                    }
                }
            ]
        }
    ]
}
