IGVFFI3061VIZC

released
validated
{
    "@context": "/terms/",
    "@id": "/matrix-files/IGVFFI3061VIZC/",
    "@type": [
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        "Item"
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    "accession": "IGVFFI3061VIZC",
    "aliases": [
        "ansuman-satpathy:igvf18_raw_rna_counts_10x3"
    ],
    "analysis_step_version": "/analysis-step-versions/072beaf9-db5c-4bb3-9d63-e5cf7ee29dd6/",
    "assay_titles": [
        "10x multiome with MULTI-seq"
    ],
    "audit": {
        "INTERNAL_ACTION": [
            {
                "category": "mismatched status",
                "detail": "Released matrix file [IGVFFI3061VIZC](/matrix-files/IGVFFI3061VIZC/) has in progress subobject reference file [IGVFFI3944QOJF](/reference-files/IGVFFI3944QOJF/).",
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                "path": "/matrix-files/IGVFFI3061VIZC/"
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            {
                "category": "mismatched status",
                "detail": "Released matrix file [IGVFFI3061VIZC](/matrix-files/IGVFFI3061VIZC/) has in progress subobject reference file [IGVFFI8311QXYM](/reference-files/IGVFFI8311QXYM/).",
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                "path": "/matrix-files/IGVFFI3061VIZC/"
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        ]
    },
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization"
    },
    "checkfiles_version": "v14",
    "content_summary": "cell by gene in raw feature barcode matrix",
    "content_type": "raw feature barcode matrix",
    "creation_timestamp": "2025-01-28T23:12:39.897589+00:00",
    "derived_from": [
        "/sequence-files/IGVFFI7960QFAF/",
        "/sequence-files/IGVFFI1858TUBD/",
        "/sequence-files/IGVFFI9454FNFG/",
        "/sequence-files/IGVFFI8420OSUH/"
    ],
    "file_format": "hdf5",
    "file_format_specifications": [
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    "file_set": {
        "@id": "/analysis-sets/IGVFDS4963SRAJ/",
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        "file_set_type": "intermediate analysis",
        "samples": [
            {
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                    {
                        "@id": "/sample-terms/EFO_0001196/",
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                    {
                        "@id": "/sample-terms/EFO_0001203/",
                        "status": "released",
                        "term_name": "MCF-7"
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                    {
                        "@id": "/sample-terms/EFO_0002824/",
                        "status": "released",
                        "term_name": "HCT116"
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                    {
                        "@id": "/sample-terms/EFO_0003072/",
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                        "@id": "/sample-terms/EFO_0022838/",
                        "status": "released",
                        "term_name": "HUDEP-2"
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                    {
                        "@id": "/sample-terms/NTR_0000753/",
                        "status": "released",
                        "term_name": "TeloHAEC"
                    }
                ],
                "status": "released",
                "summary": "multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples",
                "taxa": "Homo sapiens",
                "treatments": [
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                        "summary": "Treatment of 3 μM Yoda1 for 4 hours",
                        "treatment_term_name": "Yoda1"
                    }
                ]
            },
            {
                "@id": "/multiplexed-samples/IGVFSM4392KEFB/",
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                    },
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                        "status": "released",
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                        "@id": "/sample-terms/NTR_0000753/",
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                    }
                ],
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                        "treatment_term_name": "Yoda1"
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                        "@id": "/sample-terms/NTR_0000753/",
                        "status": "released",
                        "term_name": "TeloHAEC"
                    }
                ],
                "status": "released",
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                        "summary": "Treatment of 3 μM Yoda1 for 4 hours",
                        "treatment_term_name": "Yoda1"
                    }
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        ],
        "status": "released",
        "summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
    },
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    "gene_list_for": [],
    "href": "/matrix-files/IGVFFI3061VIZC/@@download/IGVFFI3061VIZC.h5",
    "input_file_for": [],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/ansuman-satpathy/",
        "title": "Ansuman Satpathy, Stanford"
    },
    "loci_list_for": [],
    "md5sum": "215b489feb6ad316aeb620295394f91d",
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    "release_timestamp": "2025-03-07T06:05:34.699115+00:00",
    "s3_uri": "s3://igvf-files/2025/01/28/84f45991-155e-4f57-9331-2ff9c23e0ea2/IGVFFI3061VIZC.h5",
    "schema_version": "7",
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    "submitted_by": {
        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
        "title": "Christopher Mcginnis"
    },
    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf18/e18l3_raw_feature_bc_matrix.h5",
    "summary": "cell by gene in raw feature barcode matrix",
    "upload_status": "validated",
    "uuid": "84f45991-155e-4f57-9331-2ff9c23e0ea2",
    "workflow": {
        "@id": "/workflows/IGVFWF1453HVEC/",
        "name": "Satpathy Cell Ranger",
        "uniform_pipeline": false
    }
}