IGVFFI2012GXFD

{
    "@context": "/terms/",
    "@id": "/configuration-files/IGVFFI2012GXFD/",
    "@type": [
        "ConfigurationFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI2012GXFD",
    "aliases": [
        "jesse-engreitz:seqspecfile_CRUDO_CCND1_Auxin6hrs-FF2-BinD-PCR2-Rep1_S310"
    ],
    "assay_titles": [
        "CRISPR FlowFISH screen"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization"
    },
    "content_md5sum": "344fe15922ce13a2584d434971bd39bb",
    "content_type": "seqspec",
    "creation_timestamp": "2024-06-11T20:31:09.559842+00:00",
    "file_format": "yaml",
    "file_set": {
        "@id": "/auxiliary-sets/IGVFDS5266DCYG/",
        "accession": "IGVFDS5266DCYG",
        "file_set_type": "gRNA sequencing",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM5076QTOJ/",
                "accession": "IGVFSM5076QTOJ",
                "classifications": [
                    "cell line"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "term_name": "HCT116"
                    }
                ],
                "summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin D for 55-65% expression of CCND1) 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"
            }
        ],
        "summary": "gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci"
    },
    "file_size": 914,
    "gene_list_for": [],
    "href": "/configuration-files/IGVFFI2012GXFD/@@download/IGVFFI2012GXFD.yaml.gz",
    "input_file_for": [],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/jesse-engreitz/",
        "title": "Jesse Engreitz, Stanford"
    },
    "loci_list_for": [],
    "md5sum": "4aac0fe17c66367f32d8cf6a4d035874",
    "release_timestamp": "2024-07-10T20:10:16.145797+00:00",
    "s3_uri": "s3://igvf-files/2024/06/11/fa4c29ab-4d17-4fa0-8184-31125c3e186a/IGVFFI2012GXFD.yaml.gz",
    "schema_version": "7",
    "seqspec_of": [
        "/sequence-files/IGVFFI2545NMVB/"
    ],
    "status": "released",
    "submitted_by": {
        "@id": "/users/100f06c6-83a7-4b4d-9dfd-053a1829773b/",
        "title": "Benjamin Doughty"
    },
    "submitted_file_name": "/oak/stanford/groups/engreitz/Projects/Cohesin/240410_IGVF_upload/seqspec/guideseq.out.CCND1_Auxin6hrs-FF2-BinD-PCR2-Rep1_S310.yaml",
    "summary": "seqspec of IGVFFI2545NMVB",
    "upload_status": "validated",
    "uuid": "fa4c29ab-4d17-4fa0-8184-31125c3e186a"
}