IGVFFI4732FLWG

{
    "@context": "/terms/",
    "@id": "/sequence-files/IGVFFI4732FLWG/",
    "@type": [
        "SequenceFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI4732FLWG",
    "aliases": [
        "jay-shendure:CRISPRa_singlecell_iPSCneuron_VPH_sequence_CS1_10Xlane2_seqlane1_R2"
    ],
    "assay_titles": [
        "scCRISPR screen"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG011966/",
        "component": "functional characterization"
    },
    "content_md5sum": "6b415b72ec822d4be69ab857460bc9ed",
    "content_type": "reads",
    "controlled_access": false,
    "creation_timestamp": "2023-12-09T00:51:07.635031+00:00",
    "externally_hosted": false,
    "file_format": "fastq",
    "file_set": {
        "@id": "/auxiliary-sets/IGVFDS2220HHTN/",
        "accession": "IGVFDS2220HHTN",
        "file_set_type": "gRNA sequencing",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM9913PXTT/",
                "accession": "IGVFSM9913PXTT",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/426a4099-35d9-4c65-8851-5e788a3d4e70/",
                        "modality": "activation",
                        "summary": "CRISPRa Sp-dCas9-VPH"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to neuron for 19 days (cellular sub pool: 10Xlane2), male, Homo sapiens modified with CRISPRa Sp-dCas9-VPH, transfected with a guide library",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000540/",
                    "term_name": "neuron"
                },
                "taxa": "Homo sapiens"
            }
        ],
        "summary": "gRNA sequencing for scCRISPR activation screen integrating a guide (sgRNA) library targeting TF binding sites, candidate cis-regulatory elements in many genomic loci"
    },
    "file_size": 1292079567,
    "flowcell_id": "AAAMCTVHV",
    "gene_list_for": [],
    "href": "/sequence-files/IGVFFI4732FLWG/@@download/IGVFFI4732FLWG.fastq.gz",
    "illumina_read_type": "R2",
    "input_file_for": [
        "/matrix-files/IGVFFI8270PCLP/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/jay-shendure/",
        "title": "Jay Shendure, UW"
    },
    "lane": 1,
    "loci_list_for": [],
    "maximum_read_length": 90,
    "md5sum": "7888e6f7c73c4e80b9346ff018451f53",
    "mean_read_length": 90,
    "minimum_read_length": 90,
    "read_count": 52547394,
    "release_timestamp": "2024-08-13T20:47:22.508824+00:00",
    "s3_uri": "s3://igvf-files/2023/12/09/ebc785a9-aa40-4a58-a9aa-5fbf5b644680/IGVFFI4732FLWG.fastq.gz",
    "schema_version": "14",
    "seqspecs": [],
    "sequencing_kit": "NextSeq 1000/2000 P3 Reagent Kit",
    "sequencing_platform": {
        "@id": "/platform-terms/EFO_0010963/",
        "term_name": "Illumina NextSeq 2000"
    },
    "sequencing_run": 1,
    "status": "released",
    "submitted_by": {
        "@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
        "title": "Beth Martin"
    },
    "submitted_file_name": "/net/shendure/vol10/www/content/members/CRISPRa_QTL_website/public/data/neuron_data/sequencing_data/cellranger_mkfastq_output/outs/fastq_path/AAAMCTVHV/CS1_2/CS1_2_S6_L001_R2_001.fastq.gz",
    "summary": "R2 reads from sequencing run 1",
    "upload_status": "validated",
    "uuid": "ebc785a9-aa40-4a58-a9aa-5fbf5b644680"
}