IGVFDS1598IBNK

released
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    "@context": "/terms/",
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        "@id": "/assay-terms/OBI_0002675/",
        "term_name": "massively parallel reporter assay"
    },
    "audit": {
        "INTERNAL_ACTION": [
            {
                "category": "mismatched status",
                "detail": "Released in vitro system [IGVFSM1855DKEJ](/in-vitro-systems/IGVFSM1855DKEJ/) has in progress subobject construct library set [IGVFDS7655GRFI](/construct-library-sets/IGVFDS7655GRFI/).",
                "level": 30,
                "level_name": "INTERNAL_ACTION",
                "name": "audit_item_status",
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        ]
    },
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            "file_set_type": "circularized RNA barcode detection"
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    "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": "2023-12-08T23:53:50.272371+00:00",
    "donors": [
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            "@id": "/rodent-donors/IGVFDO3898MNLZ/",
            "accession": "IGVFDO3898MNLZ",
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            "sex": "male",
            "status": "released",
            "taxa": "Mus musculus"
        }
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            "upload_status": "validated"
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            "submitted_file_name": "/net/shendure/vol8/projects/JBL/GEO_sc_rep_fastqs_nobackup/geo_submission_20221108/sc_rep_devCRE_mEBs/sc_rep_mEB_series_GEx_rep2B_lane2_R1_001.fastq.gz",
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            "upload_status": "validated"
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        {
            "@id": "/configuration-files/IGVFFI1396QBVR/",
            "accession": "IGVFFI1396QBVR",
            "aliases": [
                "jay-shendure:seqspec_of_set_IGVFDS1598IBNK"
            ],
            "content_type": "seqspec",
            "creation_timestamp": "2024-08-22T22:51:15.120631+00:00",
            "file_format": "yaml",
            "file_size": 829,
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            "submitted_file_name": "/net/shendure/vol1/home/martin91/IGVF/forupload/seqspecs/scQers/scQers_IGVFDS1598IBNK_seqspec.yaml.gz",
            "upload_status": "validated"
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    "input_file_set_for": [
        "/analysis-sets/IGVFDS2774OLAH/"
    ],
    "lab": {
        "@id": "/labs/jay-shendure/",
        "title": "Jay Shendure, UW"
    },
    "notes": "The readout 86015c12-b9a6-43ba-9601-5d75aab4d39c was removed from this measurement set.",
    "preferred_assay_title": "MPRA (scQer)",
    "protocols": [
        "https://www.protocols.io/file/n92rb7r27.pdf"
    ],
    "publications": [
        {
            "@id": "/publications/398edd7f-1ebb-40a0-a04b-450a2565667c/",
            "publication_identifiers": [
                "doi:10.1038/s41592-024-02260-3",
                "PMID:38724692"
            ]
        }
    ],
    "release_timestamp": "2024-06-27T00:41:45.811671+00:00",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM1855DKEJ/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM1855DKEJ",
            "aliases": [
                "jay-shendure:dev_CRE_mEBs_rep2B_10Xlane2"
            ],
            "cell_fate_change_treatments": [
                {
                    "@id": "/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/",
                    "purpose": "differentiation",
                    "summary": "Depletion of Leukemia inhibitory factor",
                    "treatment_type": "protein"
                }
            ],
            "classifications": [
                "differentiated cell specimen"
            ],
            "construct_library_sets": [
                {
                    "@id": "/construct-library-sets/IGVFDS7655GRFI/",
                    "accession": "IGVFDS7655GRFI",
                    "file_set_type": "reporter library",
                    "summary": "Reporter library targeting accessible genome regions in many genomic loci"
                }
            ],
            "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": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days (cellular sub pool: 10Xlane2), male, Mus musculus WD44 modified with a reporter library",
            "targeted_sample_term": {
                "@id": "/sample-terms/UBERON_0014374/",
                "term_name": "embryoid body"
            },
            "taxa": "Mus musculus"
        }
    ],
    "schema_version": "21",
    "status": "released",
    "submitted_by": {
        "@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
        "title": "Beth Martin"
    },
    "submitted_files_timestamp": "2023-12-09T00:58:03.510037+00:00",
    "summary": "MPRA (scQer) integrating a reporter library targeting accessible genome regions in many genomic loci",
    "uuid": "304883ba-199f-4227-b270-d3c65d77195f"
}