IGVFDS4330PMAC

released
{
    "@context": "/terms/",
    "@id": "/measurement-sets/IGVFDS4330PMAC/",
    "@type": [
        "MeasurementSet",
        "FileSet",
        "Item"
    ],
    "accession": "IGVFDS4330PMAC",
    "aliases": [
        "ali-mortazavi:B01_13E_illumina"
    ],
    "assay_term": {
        "@id": "/assay-terms/OBI_0003109/",
        "status": "released",
        "term_name": "single-nucleus RNA sequencing assay"
    },
    "audit": {
        "INTERNAL_ACTION": [
            {
                "category": "NTR term ID",
                "detail": "Sample term for [NTR_0000646](/sample-terms/NTR_0000646/) has been newly requested. Ontology terms with a newly requested term ID are expected to have it updated following its addition to the appropriate ontology database.",
                "level": 30,
                "level_name": "INTERNAL_ACTION",
                "name": "audit_ntr_term_id",
                "path": "/sample-terms/NTR_0000646/"
            }
        ]
    },
    "award": {
        "@id": "/awards/HG012077/",
        "component": "mapping",
        "contact_pi": {
            "@id": "/users/2c33e192-e815-4384-a220-72a0992cbe24/",
            "title": "Ali Mortazavi"
        },
        "title": "Center for Mouse Genomic Variation at Single Cell Resolution"
    },
    "control_for": [],
    "creation_timestamp": "2023-08-25T17:26:23.556936+00:00",
    "donors": [
        {
            "@id": "/rodent-donors/IGVFDO3261YWHI/",
            "accession": "IGVFDO3261YWHI",
            "aliases": [
                "ali-mortazavi:119_B6J_10M"
            ],
            "sex": "male",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO7361LABA/",
            "accession": "IGVFDO7361LABA",
            "aliases": [
                "ali-mortazavi:118_B6J_10F"
            ],
            "sex": "female",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO9333ACQP/",
            "accession": "IGVFDO9333ACQP",
            "aliases": [
                "ali-mortazavi:120_B6J_10F"
            ],
            "sex": "female",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO1486RZJK/",
            "accession": "IGVFDO1486RZJK",
            "aliases": [
                "ali-mortazavi:105_CASTJ_10M"
            ],
            "sex": "male",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO6942KQBN/",
            "accession": "IGVFDO6942KQBN",
            "aliases": [
                "ali-mortazavi:117_B6J_10M"
            ],
            "sex": "male",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO8652OFEQ/",
            "accession": "IGVFDO8652OFEQ",
            "aliases": [
                "ali-mortazavi:106_CASTJ_10F"
            ],
            "sex": "female",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO0493VGMC/",
            "accession": "IGVFDO0493VGMC",
            "aliases": [
                "ali-mortazavi:108_CASTJ_10F"
            ],
            "sex": "female",
            "status": "released",
            "taxa": "Mus musculus"
        },
        {
            "@id": "/rodent-donors/IGVFDO4816HOFW/",
            "accession": "IGVFDO4816HOFW",
            "aliases": [
                "ali-mortazavi:107_CASTJ_10M"
            ],
            "sex": "male",
            "status": "released",
            "taxa": "Mus musculus"
        }
    ],
    "externally_hosted": false,
    "file_set_type": "experimental data",
    "files": [
        {
            "@id": "/sequence-files/IGVFFI9851QSMH/",
            "accession": "IGVFFI9851QSMH",
            "content_type": "reads",
            "controlled_access": false,
            "creation_timestamp": "2023-08-25T23:04:43.467056+00:00",
            "file_format": "fastq",
            "file_size": 11817425313,
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            "s3_uri": "s3://igvf-files/2023/08/25/48c9ac1f-d007-4f27-9e1f-a6aa5c18bbfc/IGVFFI9851QSMH.fastq.gz",
            "sequencing_platform": {
                "@id": "/platform-terms/EFO_0010963/",
                "status": "released",
                "term_name": "Illumina NextSeq 2000"
            },
            "status": "released",
            "submitted_file_name": "igvf_b01/next1/igvf_b01_B05_D_next_N1_R1.fastq.gz",
            "upload_status": "validated"
        },
        {
            "@id": "/sequence-files/IGVFFI1093JAAG/",
            "accession": "IGVFFI1093JAAG",
            "content_type": "reads",
            "controlled_access": false,
            "creation_timestamp": "2023-08-25T22:43:42.916732+00:00",
            "file_format": "fastq",
            "file_size": 11420933033,
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            "sequencing_platform": {
                "@id": "/platform-terms/EFO_0010963/",
                "status": "released",
                "term_name": "Illumina NextSeq 2000"
            },
            "status": "released",
            "submitted_file_name": "igvf_b01/next2/igvf_b01_B05_D_next_N2_R1.fastq.gz",
            "upload_status": "validated"
        },
        {
            "@id": "/sequence-files/IGVFFI0790CJXN/",
            "accession": "IGVFFI0790CJXN",
            "content_type": "reads",
            "controlled_access": false,
            "creation_timestamp": "2023-08-25T22:57:36.900704+00:00",
            "file_format": "fastq",
            "file_size": 6339847985,
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            "sequencing_platform": {
                "@id": "/platform-terms/EFO_0010963/",
                "status": "released",
                "term_name": "Illumina NextSeq 2000"
            },
            "status": "released",
            "submitted_file_name": "igvf_b01/next2/igvf_b01_B05_D_next_N2_R2.fastq.gz",
            "upload_status": "validated"
        },
        {
            "@id": "/sequence-files/IGVFFI5165YLGC/",
            "accession": "IGVFFI5165YLGC",
            "content_type": "reads",
            "controlled_access": false,
            "creation_timestamp": "2023-08-25T23:18:10.258512+00:00",
            "file_format": "fastq",
            "file_size": 6357320670,
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            "s3_uri": "s3://igvf-files/2023/08/25/21687fb2-521d-40ed-84c0-6e0084b21a63/IGVFFI5165YLGC.fastq.gz",
            "sequencing_platform": {
                "@id": "/platform-terms/EFO_0010963/",
                "status": "released",
                "term_name": "Illumina NextSeq 2000"
            },
            "status": "released",
            "submitted_file_name": "igvf_b01/next1/igvf_b01_B05_D_next_N1_R2.fastq.gz",
            "upload_status": "validated"
        },
        {
            "@id": "/configuration-files/IGVFFI6760GSUG/",
            "accession": "IGVFFI6760GSUG",
            "content_type": "seqspec",
            "creation_timestamp": "2024-08-30T21:35:22.848026+00:00",
            "file_format": "yaml",
            "file_size": 1111,
            "href": "/configuration-files/IGVFFI6760GSUG/@@download/IGVFFI6760GSUG.yaml.gz",
            "s3_uri": "s3://igvf-files/2024/08/30/e2caccc5-c603-4989-a404-95bc47435990/IGVFFI6760GSUG.yaml.gz",
            "status": "released",
            "upload_status": "validated"
        },
        {
            "@id": "/configuration-files/IGVFFI5626NBXQ/",
            "accession": "IGVFFI5626NBXQ",
            "content_type": "seqspec",
            "creation_timestamp": "2024-08-30T21:35:24.092826+00:00",
            "file_format": "yaml",
            "file_size": 1113,
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            "status": "released",
            "upload_status": "validated"
        }
    ],
    "input_for": [
        "/analysis-sets/IGVFDS2762DTQI/"
    ],
    "lab": {
        "@id": "/labs/ali-mortazavi/",
        "title": "Ali Mortazavi, UCI"
    },
    "notes": "Preferred_assay_titles enum Parse Split-seq has been renamed to be Parse SPLiT-seq.",
    "preferred_assay_title": "Parse SPLiT-seq",
    "protocols": [
        "https://www.protocols.io/view/evercode-single-index-pcr-5jyl82k9rl2w/v1",
        "https://www.protocols.io/view/evercode-wt-v2-2-1-eq2lyj9relx9/v1",
        "https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-cryopreser-4r3l22y2pl1y/v1"
    ],
    "release_timestamp": "2024-05-08T23:38:39.982939+00:00",
    "samples": [
        {
            "@id": "/multiplexed-samples/IGVFSM6958ESMJ/",
            "@type": [
                "MultiplexedSample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM6958ESMJ",
            "aliases": [
                "ali-mortazavi:subpool_b01_13e"
            ],
            "classifications": [
                "multiplexed sample"
            ],
            "construct_library_sets": [],
            "disease_terms": [],
            "modifications": [],
            "sample_terms": [
                {
                    "@id": "/sample-terms/NTR_0000646/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "status": "released",
                    "summary": "left cerebral cortex",
                    "term_name": "left cerebral cortex"
                }
            ],
            "status": "released",
            "summary": "multiplexed sample: left cerebral cortex tissue, female, Mus musculus CASTJ (72 days); left cerebral cortex tissue, male, Mus musculus B6J (72 days); ... and 6 more samples",
            "taxa": "Mus musculus",
            "treatments": []
        }
    ],
    "schema_version": "23",
    "sequencing_library_types": [
        "mRNA enriched"
    ],
    "status": "released",
    "submitted_by": {
        "@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
        "title": "Diane Trout"
    },
    "submitted_files_timestamp": "2023-08-25T22:43:42.916732+00:00",
    "summary": "Parse SPLiT-seq",
    "uuid": "01ee543c-50eb-43dd-8348-e1d2ba72b247"
}