IGVFDS6660JNZU

released
{
    "@context": "/terms/",
    "@id": "/auxiliary-sets/IGVFDS6660JNZU/",
    "@type": [
        "AuxiliarySet",
        "FileSet",
        "Item"
    ],
    "accession": "IGVFDS6660JNZU",
    "aliases": [
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR1_Rep1_S140",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR1_Rep2_S195",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR2_Rep1_S146",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR2_Rep2_S201",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR3_Rep1_S152",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR3_Rep2_S207",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR4_Rep1_S158",
        "jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR4_Rep2_S213"
    ],
    "audit": {
        "INTERNAL_ACTION": [
            {
                "category": "missing sequencing kit",
                "detail": "Auxiliary set [IGVFDS6660JNZU](/auxiliary-sets/IGVFDS6660JNZU/) has sequence file(s) [IGVFFI5709RWIZ](/sequence-files/IGVFFI5709RWIZ/), [IGVFFI2502UDBL](/sequence-files/IGVFFI2502UDBL/), [IGVFFI4385VBWZ](/sequence-files/IGVFFI4385VBWZ/), [IGVFFI9220ZDKH](/sequence-files/IGVFFI9220ZDKH/), [IGVFFI6947RKEO](/sequence-files/IGVFFI6947RKEO/), [IGVFFI9861RLTL](/sequence-files/IGVFFI9861RLTL/), [IGVFFI6772UIRN](/sequence-files/IGVFFI6772UIRN/), [IGVFFI4207NYCN](/sequence-files/IGVFFI4207NYCN/) which lack specification of a `sequencing_kit`. Sequence files should specify a sequencing kit.",
                "level": 30,
                "level_name": "INTERNAL_ACTION",
                "name": "audit_inconsistent_sequencing_kit",
                "path": "/auxiliary-sets/IGVFDS6660JNZU/"
            }
        ]
    },
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization",
        "contact_pi": {
            "@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
            "title": "Jesse Engreitz"
        },
        "title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
    },
    "control_for": [],
    "creation_timestamp": "2024-05-21T17:40:01.657388+00:00",
    "donors": [
        {
            "@id": "/human-donors/IGVFDO0384OZRW/",
            "accession": "IGVFDO0384OZRW",
            "aliases": [
                "igvf:donor_of_HCT116"
            ],
            "sex": "male",
            "status": "released",
            "taxa": "Homo sapiens"
        }
    ],
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        },
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            "@id": "/configuration-files/IGVFFI4653RFBA/",
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        },
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        },
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        },
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        },
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            "@id": "/configuration-files/IGVFFI4158BVCP/",
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            "@id": "/configuration-files/IGVFFI5460AWQH/",
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            "upload_status": "validated"
        }
    ],
    "input_for": [
        "/analysis-sets/IGVFDS4544YEQM/"
    ],
    "lab": {
        "@id": "/labs/jesse-engreitz/",
        "title": "Jesse Engreitz, Stanford"
    },
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            "@id": "/measurement-sets/IGVFDS1564ZVKC/",
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                "jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR1_Rep2_S195",
                "jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR2_Rep1_S146",
                "jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR2_Rep2_S201",
                "jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR3_Rep1_S152",
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                "jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR4_Rep1_S158",
                "jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR4_Rep2_S213"
            ],
            "preferred_assay_title": "CRISPR FlowFISH screen",
            "status": "released"
        }
    ],
    "release_timestamp": "2024-07-10T20:22:11.455194+00:00",
    "samples": [
        {
            "@id": "/in-vitro-systems/IGVFSM3012RMVA/",
            "@type": [
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                "Biosample",
                "Sample",
                "Item"
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            "aliases": [
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                "jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR2_Rep2_S201",
                "jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR3_Rep1_S152",
                "jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR3_Rep2_S207",
                "jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR4_Rep1_S158",
                "jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF2-BinF-PCR4_Rep2_S213"
            ],
            "classifications": [
                "cell line"
            ],
            "construct_library_sets": [
                "/construct-library-sets/IGVFDS7857SYCK/"
            ],
            "modifications": [
                {
                    "@id": "/degron-modifications/95081d1b-08b4-49ed-b324-e53fc43d8456/",
                    "modality": "degradation",
                    "status": "released"
                },
                {
                    "@id": "/crispr-modifications/8543fa06-1720-4e7d-8e8f-7e24c1b1cf79/",
                    "modality": "interference",
                    "status": "released"
                }
            ],
            "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 (sorting details: FACS bin F for 80-100% expression of MYC) 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/",
                    "status": "released",
                    "treatment_term_name": "5-Phenyl-1H-indole-3-acetic acid"
                }
            ]
        }
    ],
    "schema_version": "12",
    "status": "released",
    "submitted_by": {
        "@id": "/users/3bd6f74c-8cf3-4c35-a94d-0c7c11654815/",
        "title": "Chongyon Park"
    },
    "submitted_files_timestamp": "2024-06-01T02:06:31.321958+00:00",
    "summary": "gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci",
    "uuid": "3b7612d2-03fb-4de5-b0e9-f03548a5c7eb"
}