IGVFFI3187CILT

{
    "@context": "/terms/",
    "@id": "/matrix-files/IGVFFI3187CILT/",
    "@type": [
        "MatrixFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI3187CILT",
    "aliases": [
        "charles-gersbach:cd8-tcells-perturb-seq-10x-5prime-mm-crispra-rep2"
    ],
    "analysis_step_version": "/analysis-step-versions/fbd5e8fb-4206-4b43-92d6-922cdfe1338b/",
    "assay_titles": [
        "Perturb-seq"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG012053/",
        "component": "functional characterization"
    },
    "content_md5sum": "45b001340daaa0929907f182bbfce967",
    "content_summary": "gene by gene expression by CRISPR guide capture in filtered feature barcode matrix",
    "content_type": "filtered feature barcode matrix",
    "creation_timestamp": "2024-09-22T17:44:27.973402+00:00",
    "derived_from": [
        "/sequence-files/IGVFFI4347FRPM/",
        "/sequence-files/IGVFFI4210ZDGH/",
        "/sequence-files/IGVFFI5263FBFP/",
        "/sequence-files/IGVFFI2784HYOZ/",
        "/sequence-files/IGVFFI3561WXFX/",
        "/sequence-files/IGVFFI2833ZOSW/",
        "/sequence-files/IGVFFI6604BYNW/",
        "/sequence-files/IGVFFI1766LEES/",
        "/sequence-files/IGVFFI2156GTTL/",
        "/sequence-files/IGVFFI5776QDOU/",
        "/sequence-files/IGVFFI2667TSYX/",
        "/sequence-files/IGVFFI8859ADJH/",
        "/sequence-files/IGVFFI3477FTDC/",
        "/sequence-files/IGVFFI1815OERU/",
        "/sequence-files/IGVFFI2310TPCX/",
        "/sequence-files/IGVFFI8495QQKY/"
    ],
    "file_format": "tar",
    "file_set": {
        "@id": "/analysis-sets/IGVFDS4011VZXE/",
        "accession": "IGVFDS4011VZXE",
        "file_set_type": "intermediate analysis",
        "samples": [
            {
                "@id": "/primary-cells/IGVFSM8036VPRU/",
                "accession": "IGVFSM8036VPRU",
                "classifications": [
                    "primary cell"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/2c49eb31-f10b-47b7-b260-4f720014ad79/",
                        "modality": "activation",
                        "summary": "CRISPRa Sa-dCas9-VP64"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/CL_0000909/",
                        "term_name": "CD8-positive, alpha-beta memory T cell"
                    }
                ],
                "summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens modified with CRISPRa Sa-dCas9-VP64, transduced (lentivirus) with a guide library (MOI of 0.4)",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/primary-cells/IGVFSM2105CLXS/",
                "accession": "IGVFSM2105CLXS",
                "classifications": [
                    "primary cell"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/2c49eb31-f10b-47b7-b260-4f720014ad79/",
                        "modality": "activation",
                        "summary": "CRISPRa Sa-dCas9-VP64"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/CL_0000909/",
                        "term_name": "CD8-positive, alpha-beta memory T cell"
                    }
                ],
                "summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens modified with CRISPRa Sa-dCas9-VP64, transduced (lentivirus) with a guide library (MOI of 0.4)",
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/primary-cells/IGVFSM6223YCQV/",
                "accession": "IGVFSM6223YCQV",
                "classifications": [
                    "primary cell"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/2c49eb31-f10b-47b7-b260-4f720014ad79/",
                        "modality": "activation",
                        "summary": "CRISPRa Sa-dCas9-VP64"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/CL_0000909/",
                        "term_name": "CD8-positive, alpha-beta memory T cell"
                    }
                ],
                "summary": "CD8-positive, alpha-beta memory T cell, Homo sapiens modified with CRISPRa Sa-dCas9-VP64, transduced (lentivirus) with a guide library (MOI of 0.4)",
                "taxa": "Homo sapiens"
            }
        ],
        "summary": "activation Perturb-seq: filtered feature barcode matrix"
    },
    "file_size": 408023091,
    "gene_list_for": [],
    "href": "/matrix-files/IGVFFI3187CILT/@@download/IGVFFI3187CILT.tar.gz",
    "input_file_for": [
        "/tabular-files/IGVFFI6830YLEK/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/charles-gersbach/",
        "title": "Charles Gersbach, Duke"
    },
    "loci_list_for": [],
    "md5sum": "097e05000bee2e2eb41a4a068dc2c82b",
    "principal_dimension": "gene",
    "reference_files": [
        "/reference-files/IGVFFI0653VCGH/"
    ],
    "release_timestamp": "2024-10-18T19:49:58.224501+00:00",
    "s3_uri": "s3://igvf-files/2024/09/22/cdc68824-145b-464f-834c-58889c92ef93/IGVFFI3187CILT.tar.gz",
    "schema_version": "7",
    "secondary_dimensions": [
        "gene expression",
        "CRISPR guide capture"
    ],
    "status": "released",
    "submitted_by": {
        "@id": "/users/29f5f78d-ac90-421e-90c6-a90e1dc407a7/",
        "title": "Alejandro Barrera"
    },
    "submitted_file_name": "/data/reddylab/Alex/IGVF/data_submissions/processed_data/AIM_2_T_cell_project_1/CRISPRa_D2_10x.tar.gz",
    "submitter_comment": "Cell Ranger Count Pipeline run with chemistry argument 'SC5P-R2'",
    "summary": "gene by gene expression by CRISPR guide capture in filtered feature barcode matrix",
    "upload_status": "validated",
    "uuid": "cdc68824-145b-464f-834c-58889c92ef93"
}