IGVFFI3898XLXK

{
    "@context": "/terms/",
    "@id": "/sequence-files/IGVFFI3898XLXK/",
    "@type": [
        "SequenceFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI3898XLXK",
    "aliases": [
        "jesse-engreitz:sequence_data_eRZ10_teloHAEC_TLNRD1_enhancer_CRISPRi_FlowFISH_Rep3_bin4"
    ],
    "assay_titles": [
        "CRISPR FlowFISH screen"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization"
    },
    "content_md5sum": "27f6148dc24c33ee94752b96c37019e8",
    "content_type": "reads",
    "controlled_access": false,
    "creation_timestamp": "2023-12-05T00:47:54.995100+00:00",
    "description": "bioRep3_FlowFISH_bin4 (highest MFI)",
    "externally_hosted": false,
    "file_format": "fastq",
    "file_set": {
        "@id": "/auxiliary-sets/IGVFDS7307RZZC/",
        "accession": "IGVFDS7307RZZC",
        "file_set_type": "gRNA sequencing",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM8121JQAK/",
                "accession": "IGVFSM8121JQAK",
                "classifications": [
                    "cell line"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/b4bc725a-8eeb-4180-9789-bece3516c0c1/",
                        "modality": "interference",
                        "summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/NTR_0000753/",
                        "term_name": "TeloHAEC"
                    }
                ],
                "summary": "TeloHAEC cell line, female, Homo sapiens (sorting details: FACS bin for 76-100% expression of TLNRD1) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
                "taxa": "Homo sapiens"
            }
        ],
        "summary": "gRNA sequencing for CRISPR interference FlowFISH screen integrating a guide (sgRNA) library targeting candidate cis-regulatory elements in a genomic locus"
    },
    "file_size": 87511988,
    "gene_list_for": [],
    "href": "/sequence-files/IGVFFI3898XLXK/@@download/IGVFFI3898XLXK.fastq.gz",
    "illumina_read_type": "R1",
    "input_file_for": [],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/jesse-engreitz/",
        "title": "Jesse Engreitz, Stanford"
    },
    "loci_list_for": [],
    "maximum_read_length": 25,
    "md5sum": "df55469f79e195d19cba95015b936a5d",
    "mean_read_length": 25,
    "minimum_read_length": 25,
    "read_count": 3739604,
    "release_timestamp": "2024-02-07T19:10:33.944571+00:00",
    "s3_uri": "s3://igvf-files/2023/12/05/898b8e86-3929-4e2c-831a-11cb31d05483/IGVFFI3898XLXK.fastq.gz",
    "schema_version": "14",
    "seqspecs": [],
    "sequencing_platform": {
        "@id": "/platform-terms/EFO_0008566/",
        "term_name": "Illumina NextSeq 550"
    },
    "sequencing_run": 1,
    "status": "released",
    "submitted_by": {
        "@id": "/users/4b2083b4-24c1-41d8-9daa-e79299f00d6e/",
        "title": "Ronghao Zhou"
    },
    "submitted_file_name": "/Users/ronghao/Desktop/Research/data/eRZ10_FlowFISH/TLNRD1/eRZ10_FlowFISH_fastq/T3_bin4_S30_R1_001.fastq.gz",
    "summary": "R1 reads from sequencing run 1",
    "upload_status": "validated",
    "uuid": "898b8e86-3929-4e2c-831a-11cb31d05483"
}