IGVFFI6162WULK

released
validated
{
    "@context": "/terms/",
    "@id": "/tabular-files/IGVFFI6162WULK/",
    "@type": [
        "TabularFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI6162WULK",
    "aliases": [
        "jesse-engreitz:auxiliary_sortparams_file_CRUDO_KITLG-Auxin0hrs-FF3"
    ],
    "assay_titles": [
        "CRISPR FlowFISH screen"
    ],
    "audit": {
        "NOT_COMPLIANT": [
            {
                "category": "missing file format specifications",
                "detail": "Tabular file [IGVFFI6162WULK](/tabular-files/IGVFFI6162WULK/) has no `file_format_specifications`. Tabular files are expected to link to a file format specifications document describing the headers of the file.",
                "level": 50,
                "level_name": "NOT_COMPLIANT",
                "name": "audit_tabular_file_no_file_format_specifications",
                "path": "/tabular-files/IGVFFI6162WULK/"
            }
        ]
    },
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization"
    },
    "barcode_map_for": [],
    "content_md5sum": "a1304cf4a89259ff65b1b7ed8bb0c02c",
    "content_type": "sample sort parameters",
    "controlled_access": false,
    "creation_timestamp": "2024-07-03T00:35:39.395979+00:00",
    "file_format": "tsv",
    "file_set": {
        "@id": "/auxiliary-sets/IGVFDS0329USVJ/",
        "accession": "IGVFDS0329USVJ",
        "file_set_type": "cell sorting",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM2914OOTJ/",
                "accession": "IGVFSM2914OOTJ",
                "classifications": [
                    "cell line"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "term_name": "HCT116"
                    }
                ],
                "summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin A for 0-10% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM1489ABUX/",
                "accession": "IGVFSM1489ABUX",
                "classifications": [
                    "cell line"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "term_name": "HCT116"
                    }
                ],
                "summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin B for 10-20% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM0811AZWF/",
                "accession": "IGVFSM0811AZWF",
                "classifications": [
                    "cell line"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "term_name": "HCT116"
                    }
                ],
                "summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin C for 35-45% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM3068ZYXS/",
                "accession": "IGVFSM3068ZYXS",
                "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 KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM0596STHT/",
                "accession": "IGVFSM0596STHT",
                "classifications": [
                    "cell line"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "term_name": "HCT116"
                    }
                ],
                "summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin E for 80-90% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM7141IWGF/",
                "accession": "IGVFSM7141IWGF",
                "classifications": [
                    "cell line"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "term_name": "HCT116"
                    }
                ],
                "summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin F for 80-100% expression of KITLG) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            }
        ],
        "summary": "cell sorting for CRISPR interference FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci, CRISPR interference FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci, ... and 4 more measurement sets"
    },
    "file_size": 490,
    "gene_list_for": [],
    "href": "/tabular-files/IGVFFI6162WULK/@@download/IGVFFI6162WULK.tsv.gz",
    "input_file_for": [
        "/tabular-files/IGVFFI5319EGKY/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/jesse-engreitz/",
        "title": "Jesse Engreitz, Stanford"
    },
    "loci_list_for": [],
    "md5sum": "eec1899885383fd227cd438f9f5e7df7",
    "release_timestamp": "2024-07-10T20:28:16.843162+00:00",
    "s3_uri": "s3://igvf-files/2024/07/03/c82a6a65-b055-4b1c-b311-13189bebe0cd/IGVFFI6162WULK.tsv.gz",
    "schema_version": "13",
    "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/sortparams2/220104B013_4.tsv.gz",
    "summary": "sample sort parameters",
    "upload_status": "validated",
    "uuid": "c82a6a65-b055-4b1c-b311-13189bebe0cd"
}