IGVFDS6896VSKX

released
{
    "@context": "/terms/",
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    "@type": [
        "MeasurementSet",
        "FileSet",
        "Item"
    ],
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    "aliases": [
        "jesse-engreitz:measurement_CRUDO_TAPseq-Auxin6hrs-Rep1"
    ],
    "assay_term": {
        "@id": "/assay-terms/OBI_0003660/",
        "term_name": "in vitro CRISPR screen using single-cell RNA-seq"
    },
    "audit": {
        "NOT_COMPLIANT": [
            {
                "category": "missing sequencing kit",
                "detail": "Auxiliary set [IGVFDS5533XJRU](/auxiliary-sets/IGVFDS5533XJRU/) has sequence file(s) [IGVFFI7012CCWR](/sequence-files/IGVFFI7012CCWR/), [IGVFFI7666EOCK](/sequence-files/IGVFFI7666EOCK/), [IGVFFI4762FVTH](/sequence-files/IGVFFI4762FVTH/), [IGVFFI0675WIPQ](/sequence-files/IGVFFI0675WIPQ/), [IGVFFI4105QVFH](/sequence-files/IGVFFI4105QVFH/), [IGVFFI1421DDQV](/sequence-files/IGVFFI1421DDQV/), [IGVFFI8910PMMH](/sequence-files/IGVFFI8910PMMH/), [IGVFFI5484ZXJH](/sequence-files/IGVFFI5484ZXJH/), [IGVFFI7147GVXA](/sequence-files/IGVFFI7147GVXA/), [IGVFFI2954POWQ](/sequence-files/IGVFFI2954POWQ/), [IGVFFI2914SEZO](/sequence-files/IGVFFI2914SEZO/), [IGVFFI1192NXTI](/sequence-files/IGVFFI1192NXTI/) which lack specification of a `sequencing_kit`. Sequence files should specify a sequencing kit.",
                "level": 50,
                "level_name": "NOT_COMPLIANT",
                "name": "audit_inconsistent_sequencing_kit",
                "path": "/auxiliary-sets/IGVFDS5533XJRU/"
            },
            {
                "category": "missing sequencing kit",
                "detail": "Measurement set [IGVFDS6896VSKX](/measurement-sets/IGVFDS6896VSKX/) has sequence file(s) [IGVFFI9778ISFP](/sequence-files/IGVFFI9778ISFP/), [IGVFFI9026YNOD](/sequence-files/IGVFFI9026YNOD/), [IGVFFI7012DKGV](/sequence-files/IGVFFI7012DKGV/), [IGVFFI9585YHED](/sequence-files/IGVFFI9585YHED/), [IGVFFI2763QTWE](/sequence-files/IGVFFI2763QTWE/), [IGVFFI2367JOHE](/sequence-files/IGVFFI2367JOHE/), [IGVFFI8354TIRT](/sequence-files/IGVFFI8354TIRT/), [IGVFFI4212DNWG](/sequence-files/IGVFFI4212DNWG/), [IGVFFI1732ALVS](/sequence-files/IGVFFI1732ALVS/), [IGVFFI4474HZGX](/sequence-files/IGVFFI4474HZGX/), [IGVFFI4606KWZQ](/sequence-files/IGVFFI4606KWZQ/), [IGVFFI4195HNMX](/sequence-files/IGVFFI4195HNMX/) which lack specification of a `sequencing_kit`. Sequence files should specify a sequencing kit.",
                "level": 50,
                "level_name": "NOT_COMPLIANT",
                "name": "audit_inconsistent_sequencing_kit",
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            }
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            ],
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        "@id": "/awards/HG011972/",
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            "title": "Jesse Engreitz"
        },
        "title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
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    "creation_timestamp": "2024-05-23T22:48:12.505745+00:00",
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            "@id": "/human-donors/IGVFDO0384OZRW/",
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                "igvf:donor_of_HCT116"
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            "sex": "male",
            "status": "released",
            "taxa": "Homo sapiens"
        }
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    "input_for": [
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    "lab": {
        "@id": "/labs/jesse-engreitz/",
        "title": "Jesse Engreitz, Stanford"
    },
    "notes": "The readout 86015c12-b9a6-43ba-9601-5d75aab4d39c was removed from this measurement set.",
    "preferred_assay_title": "TAP-seq",
    "protocols": [
        "https://www.protocols.io/view/crispri-of-regulatory-elements-upon-degron-operati-5jyl82d59l2w/v1"
    ],
    "release_timestamp": "2024-07-10T19:53:36.270241+00:00",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM9983LVUX/",
            "@type": [
                "InVitroSystem",
                "Biosample",
                "Sample",
                "Item"
            ],
            "accession": "IGVFSM9983LVUX",
            "aliases": [
                "jesse-engreitz:in-vitro-system_CRUDO_TAPseq-Auxin6hrs-Rep1"
            ],
            "classifications": [
                "cell line"
            ],
            "construct_library_sets": [
                {
                    "@id": "/construct-library-sets/IGVFDS9869EMNE/",
                    "accession": "IGVFDS9869EMNE",
                    "file_set_type": "guide library",
                    "summary": "Guide (sgRNA) library targeting accessible genome regions in 29 genomic loci"
                }
            ],
            "modifications": [
                {
                    "@id": "/degron-modifications/95081d1b-08b4-49ed-b324-e53fc43d8456/",
                    "modality": "degradation"
                },
                {
                    "@id": "/crispr-modifications/8543fa06-1720-4e7d-8e8f-7e24c1b1cf79/",
                    "modality": "interference"
                }
            ],
            "sample_terms": [
                {
                    "@id": "/sample-terms/EFO_0002824/",
                    "@type": [
                        "SampleTerm",
                        "OntologyTerm",
                        "Item"
                    ],
                    "aliases": [
                        "igvf:HCT116"
                    ],
                    "status": "released",
                    "summary": "HCT116",
                    "term_name": "HCT116"
                }
            ],
            "status": "released",
            "summary": "HCT116 cell line, male, Homo sapiens treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours, modified with AID system targeting RAD21, CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
            "taxa": "Homo sapiens",
            "treatments": [
                {
                    "@id": "/treatments/d35868d1-c45b-49ae-8ff3-a9c0c22551c2/",
                    "treatment_term_name": "5-Phenyl-1H-indole-3-acetic acid"
                }
            ]
        }
    ],
    "schema_version": "22",
    "status": "released",
    "submitted_by": {
        "@id": "/users/3bd6f74c-8cf3-4c35-a94d-0c7c11654815/",
        "title": "Chongyon Park"
    },
    "submitted_files_timestamp": "2024-06-03T19:09:45.640392+00:00",
    "summary": "mixed TAP-seq integrating a guide (sgRNA) library targeting accessible genome regions in 29 genomic loci",
    "uuid": "b5bdfc71-7a84-4ab6-a9c5-e4eee8ea194c"
}