IGVFDS4952VFOW

released
{
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    "@type": [
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        "FileSet",
        "Item"
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    "accession": "IGVFDS4952VFOW",
    "aliases": [
        "jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day10_reads"
    ],
    "audit": {},
    "award": {
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        "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"
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    "construct_library_sets": [
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            "accession": "IGVFDS7655GRFI",
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                    "accession": "IGVFFI8904VCYX",
                    "content_type": "MPRA sequence designs",
                    "status": "released",
                    "summary": "MPRA sequence designs"
                }
            ],
            "status": "released",
            "summary": "reporter library targeting accessible genome regions in many genomic loci"
        }
    ],
    "control_for": [],
    "creation_timestamp": "2023-12-08T23:52:31.650309+00:00",
    "donors": [
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            "accession": "IGVFDO3898MNLZ",
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            "sex": "male",
            "status": "released",
            "strain_background": "C57BL/6J (B6)",
            "taxa": "Mus musculus"
        }
    ],
    "file_set_type": "quantification DNA barcode sequencing",
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            "@id": "/sequence-files/IGVFFI4945TRTF/",
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            "content_type": "reads",
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            "creation_timestamp": "2023-12-09T00:56:27.207980+00:00",
            "file_format": "fastq",
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            "submitted_file_name": "/net/shendure/vol8/projects/JBL/GEO_sc_rep_fastqs_nobackup/geo_submission_20221108/bulkMPRA_devCRE_mEBs/bulk_MPRA_mEB_series_mBC_repB_d10_DNA_R3_001.fastq.gz",
            "upload_status": "validated"
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        {
            "@id": "/configuration-files/IGVFFI2482JJVC/",
            "accession": "IGVFFI2482JJVC",
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            ],
            "content_type": "seqspec",
            "creation_timestamp": "2025-04-03T22:51:50.904763+00:00",
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            "status": "in progress",
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            "upload_status": "validated"
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    ],
    "input_for": [
        "/analysis-sets/IGVFDS2622CKLA/"
    ],
    "lab": {
        "@id": "/labs/jay-shendure/",
        "title": "Jay Shendure, UW"
    },
    "measurement_sets": [
        {
            "@id": "/measurement-sets/IGVFDS7261GFNR/",
            "accession": "IGVFDS7261GFNR",
            "aliases": [
                "jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day10_reads"
            ],
            "preferred_assay_title": "MPRA",
            "status": "released"
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    ],
    "publications": [
        {
            "@id": "/publications/398edd7f-1ebb-40a0-a04b-450a2565667c/",
            "publication_identifiers": [
                "doi:10.1038/s41592-024-02260-3",
                "PMID:38724692"
            ],
            "status": "released"
        }
    ],
    "release_timestamp": "2024-06-27T00:41:15.436667+00:00",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM6391CMQH/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM6391CMQH",
            "aliases": [
                "jay-shendure:dev_CRE_mEBs_repB_bulk_day10"
            ],
            "classifications": [
                "differentiated cell specimen"
            ],
            "institutional_certificates": [],
            "sample_terms": [
                {
                    "@id": "/sample-terms/EFO_0004038/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "status": "released",
                    "summary": "mouse embryonic stem cell",
                    "term_name": "mouse embryonic stem cell"
                }
            ],
            "status": "released",
            "summary": "Mus musculus WD44 (male) mouse embryonic stem differentiated cell specimen induced to embryoid body for 10 days transfected with a reporter library",
            "targeted_sample_term": {
                "@id": "/sample-terms/UBERON_0014374/",
                "status": "released",
                "term_name": "embryoid body"
            },
            "taxa": "Mus musculus"
        }
    ],
    "schema_version": "12",
    "status": "released",
    "submitted_by": {
        "@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
        "title": "Beth Martin"
    },
    "submitted_files_timestamp": "2023-12-09T00:56:24.692522+00:00",
    "summary": "quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci",
    "uuid": "861c4cd0-f02d-4a56-a4df-c8725699e9b3"
}