IGVFFI9532SPYG

{
    "@context": "/terms/",
    "@id": "/tabular-files/IGVFFI9532SPYG/",
    "@type": [
        "TabularFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI9532SPYG",
    "aliases": [
        "ansuman-satpathy:igvf0_fragments_10x1"
    ],
    "analysis_step_version": "/analysis-step-versions/4e4a3f0b-c3bc-477c-bc53-c3091bc56756/",
    "assay_titles": [
        "10x multiome with MULTI-seq"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization"
    },
    "barcode_map_for": [],
    "checkfiles_version": "v14",
    "content_md5sum": "71ed749a36369bc28b09e5d2dc5921e4",
    "content_type": "fragments",
    "controlled_access": false,
    "creation_timestamp": "2025-02-14T22:58:12.890513+00:00",
    "derived_from": [
        "/sequence-files/IGVFFI3568SBTV/",
        "/sequence-files/IGVFFI1986FAVM/",
        "/sequence-files/IGVFFI8652MKWJ/",
        "/sequence-files/IGVFFI5795ORFY/"
    ],
    "file_format": "tsv",
    "file_format_specifications": [
        "/documents/43920105-5f77-430a-9bcd-f00180ff2b1d/"
    ],
    "file_set": {
        "@id": "/analysis-sets/IGVFDS5448FWBW/",
        "accession": "IGVFDS5448FWBW",
        "file_set_type": "intermediate analysis",
        "samples": [
            {
                "@id": "/multiplexed-samples/IGVFSM2682GVVD/",
                "accession": "IGVFSM2682GVVD",
                "classifications": [
                    "differentiated cell specimen",
                    "multiplexed sample"
                ],
                "disease_terms": [],
                "modifications": [],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009747/",
                        "status": "released",
                        "term_name": "GM25256 (WTC-11)"
                    }
                ],
                "status": "released",
                "summary": "multiplexed sample: GM25256 (WTC-11) differentiated cell specimen induced to endothelial cell for 3 days, male, Homo sapiens; GM25256 (WTC-11) differentiated cell specimen induced to endothelial cell for 4 days, male, Homo sapiens; ... and 21 more samples",
                "taxa": "Homo sapiens",
                "treatments": []
            }
        ],
        "status": "released",
        "summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
    },
    "file_size": 5940246010,
    "gene_list_for": [],
    "href": "/tabular-files/IGVFFI9532SPYG/@@download/IGVFFI9532SPYG.tsv.gz",
    "input_file_for": [
        "/tabular-files/IGVFFI0480XBYK/",
        "/index-files/IGVFFI7419FNVX/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/ansuman-satpathy/",
        "title": "Ansuman Satpathy, Stanford"
    },
    "loci_list_for": [],
    "md5sum": "6b201a330fd8c0e61a865cffed27dcdf",
    "notes": "The file starts with # in the first multiple lines. Because this file came straight from cell ranger, we'll validation exempt it.",
    "quality_metrics": [],
    "release_timestamp": "2025-03-07T06:04:01.434199+00:00",
    "s3_uri": "s3://igvf-files/2025/02/14/68cec871-30ef-45c7-bd63-034f7de3b521/IGVFFI9532SPYG.tsv.gz",
    "schema_version": "13",
    "status": "released",
    "submitted_by": {
        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
        "title": "Christopher Mcginnis"
    },
    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf0/e0l1_fragments.tsv.gz",
    "summary": "fragments",
    "upload_status": "validation exempted",
    "uuid": "68cec871-30ef-45c7-bd63-034f7de3b521",
    "validation_error_detail": "{\"tabular_file_error\": {\"schema\": null, \"error_number_limit\": 1000, \"number_of_errors\": 1000, \"extra-cell\": {\"count\": 1000, \"description\": \"This row has more values compared to the header row (the first row in the data source). A key concept is that all the rows in tabular data must have the same number of columns.\", \"details\": [{\"row_number\": 52, \"field_number\": 2, \"note\": \"\"}, {\"row_number\": 52, \"field_number\": 3, \"note\": \"\"}]}, \"error_types\": [\"extra-cell\"]}}",
    "workflow": {
        "@id": "/workflows/IGVFWF1453HVEC/",
        "name": "Satpathy Cell Ranger",
        "uniform_pipeline": false
    }
}