IGVFFI9503SXXQ

preview
validated
{
    "@context": "/terms/",
    "@id": "/matrix-files/IGVFFI9503SXXQ/",
    "@type": [
        "MatrixFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI9503SXXQ",
    "aliases": [
        "gary-hon:WTC11_TF_Perturb_Seq_Pilot_NPC_Lenti_PrimaryAnalysis_h5"
    ],
    "analysis_step_version": "/analysis-step-versions/65c095ee-8330-48d0-bc03-d930326fe393/",
    "assay_titles": [
        "Perturb-seq"
    ],
    "audit": {
        "INTERNAL_ACTION": [
            {
                "category": "mismatched status",
                "detail": "Preview matrix file [IGVFFI9503SXXQ](/matrix-files/IGVFFI9503SXXQ/) has in progress subobject analysis step version [65c095ee-8330-48d0-bc03-d930326fe393](/analysis-step-versions/65c095ee-8330-48d0-bc03-d930326fe393/).",
                "level": 30,
                "level_name": "INTERNAL_ACTION",
                "name": "audit_item_status",
                "path": "/matrix-files/IGVFFI9503SXXQ/"
            }
        ]
    },
    "award": {
        "@id": "/awards/HG011996/",
        "component": "functional characterization"
    },
    "content_summary": "cell by UMI count in filtered feature barcode matrix",
    "content_type": "filtered feature barcode matrix",
    "creation_timestamp": "2024-12-17T23:39:58.712141+00:00",
    "file_format": "hdf5",
    "file_set": {
        "@id": "/analysis-sets/IGVFDS1588TVKF/",
        "accession": "IGVFDS1588TVKF",
        "file_set_type": "principal analysis",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM1288TQKF/",
                "accession": "IGVFSM1288TQKF",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
                        "modality": "interference",
                        "status": "preview",
                        "summary": "CRISPRi Sp-dCas9"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "preview",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to neural stem cell for 20 days (cellular sub pool: subpool_LW282), male, Homo sapiens modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000047/",
                    "status": "preview",
                    "term_name": "neural stem cell"
                },
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM2597WGYB/",
                "accession": "IGVFSM2597WGYB",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
                        "modality": "interference",
                        "status": "preview",
                        "summary": "CRISPRi Sp-dCas9"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "preview",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to neural stem cell for 20 days (cellular sub pool: subpool_LW284), male, Homo sapiens modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000047/",
                    "status": "preview",
                    "term_name": "neural stem cell"
                },
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM8464JMJS/",
                "accession": "IGVFSM8464JMJS",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
                        "modality": "interference",
                        "status": "preview",
                        "summary": "CRISPRi Sp-dCas9"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "preview",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to neural stem cell for 20 days (cellular sub pool: subpool_LW283), male, Homo sapiens modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000047/",
                    "status": "preview",
                    "term_name": "neural stem cell"
                },
                "taxa": "Homo sapiens"
            },
            {
                "@id": "/in-vitro-systems/IGVFSM0956HKRJ/",
                "accession": "IGVFSM0956HKRJ",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "modifications": [
                    {
                        "@id": "/crispr-modifications/0a63b754-eca4-44aa-bbc2-fccdc6c44fb5/",
                        "modality": "interference",
                        "status": "preview",
                        "summary": "CRISPRi Sp-dCas9"
                    }
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "preview",
                "summary": "GM25256 (WTC-11) differentiated cell specimen induced to neural stem cell for 20 days (cellular sub pool: subpool_LW281), male, Homo sapiens modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library",
                "targeted_sample_term": {
                    "@id": "/sample-terms/CL_0000047/",
                    "status": "preview",
                    "term_name": "neural stem cell"
                },
                "taxa": "Homo sapiens"
            }
        ],
        "status": "preview",
        "summary": "interference Perturb-seq: filtered feature barcode matrix, raw feature barcode matrix, sparse gene count matrix"
    },
    "file_size": 508318738,
    "gene_list_for": [],
    "href": "/matrix-files/IGVFFI9503SXXQ/@@download/IGVFFI9503SXXQ.h5",
    "input_file_for": [],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/gary-hon/",
        "title": "Gary Hon, UT"
    },
    "loci_list_for": [],
    "md5sum": "06da94fd830b72b7a91e28e833af968d",
    "principal_dimension": "cell",
    "reference_files": [
        "/reference-files/IGVFFI6815WBWB/"
    ],
    "s3_uri": "s3://igvf-files/2024/12/17/8ce7f67a-3cb4-402c-ba5e-02008dbecdce/IGVFFI9503SXXQ.h5",
    "schema_version": "7",
    "secondary_dimensions": [
        "UMI count"
    ],
    "status": "preview",
    "submitted_by": {
        "@id": "/users/b05645f1-2d56-4a5e-b272-4601e555a3fa/",
        "title": "Mpathi Nzima"
    },
    "submitted_file_name": "/project/GCRB/Hon_lab/s215194/Single_Cell/TF_perturb_seq/_pipeline_reporcessing/_combined_npc/aggr_transciptome/TF_perturbseq_npc/outs/count/filtered_feature_bc_matrix.h5",
    "summary": "cell by UMI count in filtered feature barcode matrix",
    "upload_status": "validated",
    "uuid": "8ce7f67a-3cb4-402c-ba5e-02008dbecdce"
}