IGVFDS5394QLIN

{
    "@context": "/terms/",
    "@id": "/analysis-sets/IGVFDS5394QLIN/",
    "@type": [
        "AnalysisSet",
        "FileSet",
        "Item"
    ],
    "accession": "IGVFDS5394QLIN",
    "assay_titles": [
        "lentiMPRA"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG011966/",
        "component": "functional characterization",
        "contact_pi": {
            "@id": "/users/eb543cda-67b7-493c-84eb-187d0dac13ba/",
            "title": "Jay Shendure"
        },
        "title": "Massively parallel characterization of variants and elements impacting transcriptional regulation in dynamic cellular systems"
    },
    "control_for": [],
    "creation_timestamp": "2025-01-17T14:47:46.361765+00:00",
    "donors": [
        {
            "@id": "/human-donors/IGVFDO7918LJOI/",
            "accession": "IGVFDO7918LJOI",
            "sex": "unspecified",
            "status": "released",
            "taxa": "Homo sapiens"
        }
    ],
    "file_set_type": "principal analysis",
    "files": [
        {
            "@id": "/tabular-files/IGVFFI6886KJDH/",
            "accession": "IGVFFI6886KJDH",
            "content_type": "reporter genomic variant effects",
            "controlled_access": false,
            "creation_timestamp": "2025-01-17T14:51:28.795272+00:00",
            "file_format": "tsv",
            "file_size": 120705,
            "href": "/tabular-files/IGVFFI6886KJDH/@@download/IGVFFI6886KJDH.tsv.gz",
            "s3_uri": "s3://igvf-files/2025/01/17/5139cbcb-c692-4128-aad5-6014f9360fec/IGVFFI6886KJDH.tsv.gz",
            "status": "released",
            "submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/kircher/IGVF_data_submssion_TM/ASD_nadav/analysis_files/ASD_MPRA_PRocessedFile_SubmissionRequest/RefAlt_resout.tsv.gz\"",
            "upload_status": "validated"
        }
    ],
    "functional_assay_mechanisms": [],
    "input_file_sets": [
        {
            "@id": "/analysis-sets/IGVFDS0864KDKH/",
            "accession": "IGVFDS0864KDKH",
            "file_set_type": "intermediate analysis",
            "status": "released"
        },
        {
            "@id": "/auxiliary-sets/IGVFDS3325AHYB/",
            "accession": "IGVFDS3325AHYB",
            "file_set_type": "quantification DNA barcode sequencing",
            "status": "released"
        },
        {
            "@id": "/auxiliary-sets/IGVFDS0534ALXE/",
            "accession": "IGVFDS0534ALXE",
            "file_set_type": "quantification DNA barcode sequencing",
            "status": "released"
        },
        {
            "@id": "/auxiliary-sets/IGVFDS7143XIKJ/",
            "accession": "IGVFDS7143XIKJ",
            "file_set_type": "quantification DNA barcode sequencing",
            "status": "released"
        },
        {
            "@id": "/measurement-sets/IGVFDS1253DLDL/",
            "accession": "IGVFDS1253DLDL",
            "file_set_type": "experimental data",
            "status": "released"
        },
        {
            "@id": "/measurement-sets/IGVFDS4302OZMS/",
            "accession": "IGVFDS4302OZMS",
            "file_set_type": "experimental data",
            "status": "released"
        },
        {
            "@id": "/measurement-sets/IGVFDS1673EWYY/",
            "accession": "IGVFDS1673EWYY",
            "file_set_type": "experimental data",
            "status": "released"
        }
    ],
    "input_for": [],
    "lab": {
        "@id": "/labs/nadav-ahituv/",
        "title": "Nadav Ahituv, UCSF"
    },
    "protocols": [
        "https://www.protocols.io/view/massive-parallel-reporter-assay-mpra-kxygxpmkwl8j/v1"
    ],
    "publications": [
        {
            "@id": "/publications/a9a39fe1-5a47-429f-86d6-a4013dbeba2d/",
            "publication_identifiers": [
                "PMID:36834916"
            ],
            "status": "released"
        }
    ],
    "release_timestamp": "2025-01-28T02:01:21.416388+00:00",
    "sample_summary": "neural progenitor cell pooled cell specimen, transfected with a reporter library",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM0720XHJA/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM0720XHJA",
            "classifications": [
                "pooled cell specimen"
            ],
            "construct_library_sets": [
                "/construct-library-sets/IGVFDS9668QVZD/"
            ],
            "sample_terms": [
                {
                    "@id": "/sample-terms/CL_0011020/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "status": "released",
                    "summary": "neural progenitor cell",
                    "term_name": "neural progenitor cell"
                }
            ],
            "status": "released",
            "summary": "neural progenitor pooled cell specimen, Homo sapiens transfected with a reporter library",
            "taxa": "Homo sapiens"
        }
    ],
    "schema_version": "9",
    "status": "released",
    "submitted_by": {
        "@id": "/users/3ad3479d-753b-4293-9c09-c0dcabfd0ddb/",
        "title": "Max Schubach"
    },
    "submitted_files_timestamp": "2025-01-17T14:51:28.795272+00:00",
    "summary": "lentiMPRA: reporter genomic variant effects",
    "uuid": "fd3d80af-bf1b-4559-bce9-dd2368bade54",
    "workflows": [
        {
            "@id": "/workflows/IGVFWF1390CSVD/",
            "accession": "IGVFWF1390CSVD",
            "name": "MPRAnalyze Variant Annotation",
            "status": "released",
            "uniform_pipeline": false
        }
    ]
}