IGVFDS2075SWXE

{
    "@context": "/terms/",
    "@id": "/measurement-sets/IGVFDS2075SWXE/",
    "@type": [
        "MeasurementSet",
        "FileSet",
        "Item"
    ],
    "accession": "IGVFDS2075SWXE",
    "aliases": [
        "igvf:multiome_scrna_seq"
    ],
    "assay_term": {
        "@id": "/assay-terms/OBI_0002631/",
        "term_name": "single-cell RNA sequencing assay"
    },
    "audit": {
        "INTERNAL_ACTION": [
            {
                "category": "mismatched status",
                "detail": "Released measurement set [IGVFDS2075SWXE](/measurement-sets/IGVFDS2075SWXE/) has in progress subobject in vitro system [IGVFSM2795QSOV](/in-vitro-systems/IGVFSM2795QSOV/).",
                "level": 30,
                "level_name": "INTERNAL_ACTION",
                "name": "audit_item_status",
                "path": "/measurement-sets/IGVFDS2075SWXE/"
            },
            {
                "category": "mismatched status",
                "detail": "Released human donor [IGVFDO9208RPQQ](/human-donors/IGVFDO9208RPQQ/) has in progress subobject publication [59c63dd9-b5fb-4768-8045-ed8c0003a40c](/publications/59c63dd9-b5fb-4768-8045-ed8c0003a40c/).",
                "level": 30,
                "level_name": "INTERNAL_ACTION",
                "name": "audit_item_status",
                "path": "/human-donors/IGVFDO9208RPQQ/"
            }
        ],
        "NOT_COMPLIANT": [
            {
                "category": "missing NIH certification",
                "detail": "Measurement set [IGVFDS2075SWXE](/measurement-sets/IGVFDS2075SWXE/) has a sample [IGVFSM2795QSOV](/in-vitro-systems/IGVFSM2795QSOV/) that lacks any `institutional_certificates` issued to the lab that submitted this file set. Measurement sets for mapping assays or controlled access characterization assays involving samples with a human origin are expected to link to the relevant institutional certificates issued to a matching lab and award.",
                "level": 50,
                "level_name": "NOT_COMPLIANT",
                "name": "audit_missing_institutional_certification",
                "path": "/measurement-sets/IGVFDS2075SWXE/"
            },
            {
                "category": "missing protocol",
                "detail": "Measurement set [IGVFDS2075SWXE](/measurement-sets/IGVFDS2075SWXE/) has no `protocols`. Measurement sets are expected to specify the experimental protocol utilized for conducting the assay on protocols.io.",
                "level": 50,
                "level_name": "NOT_COMPLIANT",
                "name": "audit_unspecified_protocol",
                "path": "/measurement-sets/IGVFDS2075SWXE/"
            }
        ],
        "WARNING": [
            {
                "category": "missing files",
                "detail": "Measurement set [IGVFDS2075SWXE](/measurement-sets/IGVFDS2075SWXE/) has no `files`. File sets are expected to have files.",
                "level": 40,
                "level_name": "WARNING",
                "name": "audit_no_files",
                "path": "/measurement-sets/IGVFDS2075SWXE/"
            }
        ]
    },
    "award": {
        "@id": "/awards/HG012051/",
        "component": "networks",
        "contact_pi": {
            "@id": "/users/7138e67a-2af5-4a48-90bc-04ea95b53c78/",
            "title": "Danwei Huangfu"
        },
        "title": "Genomic control of gene regulatory networks governing early human lineage decisions"
    },
    "control_for": [],
    "creation_timestamp": "2023-04-27T18:51:25.517421+00:00",
    "donors": [
        {
            "@id": "/human-donors/IGVFDO9208RPQQ/",
            "accession": "IGVFDO9208RPQQ",
            "aliases": [
                "igvf:donor_of_K562"
            ],
            "sex": "female",
            "status": "released",
            "taxa": "Homo sapiens"
        }
    ],
    "externally_hosted": false,
    "file_set_type": "experimental data",
    "files": [],
    "input_for": [],
    "lab": {
        "@id": "/labs/danwei-huangfu/",
        "title": "Danwei Huangfu, MSKCC"
    },
    "multiome_size": 2,
    "preferred_assay_title": "10x multiome",
    "related_multiome_datasets": [
        {
            "@id": "/measurement-sets/IGVFDS3910MZMQ/",
            "accession": "IGVFDS3910MZMQ"
        }
    ],
    "release_timestamp": "2023-04-27T18:51:25.501042+00:00",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM2795QSOV/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM2795QSOV",
            "classifications": [
                "cell line"
            ],
            "construct_library_sets": [
                {
                    "@id": "/construct-library-sets/IGVFDS0948BMCL/",
                    "accession": "IGVFDS0948BMCL",
                    "file_set_type": "guide library",
                    "summary": "Guide (sgRNA) library targeting TF binding sites, phenotype-associated variants genome-wide associated with DiGeorge syndrome"
                }
            ],
            "sample_terms": [
                {
                    "@id": "/sample-terms/EFO_0002067/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "aliases": [
                        "igvf:K562"
                    ],
                    "status": "released",
                    "summary": "K562",
                    "term_name": "K562"
                }
            ],
            "status": "in progress",
            "summary": "K562 cell line, female, Homo sapiens transfected with a guide library",
            "taxa": "Homo sapiens"
        }
    ],
    "schema_version": "23",
    "status": "released",
    "submitted_by": {
        "@id": "/users/1e75d989-a438-4d77-a451-8a297fd3636e/",
        "title": "Ian Whaling"
    },
    "summary": "single-cell RNA sequencing assay (10x multiome) integrating a guide (sgRNA) library targeting TF binding sites, phenotype-associated variants genome-wide associated with DiGeorge syndrome",
    "uuid": "4102848f-4d47-4fd4-9491-b77ce7c9dbb1"
}