IGVFFI0480XBYK

{
    "@context": "/terms/",
    "@id": "/tabular-files/IGVFFI0480XBYK/",
    "@type": [
        "TabularFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI0480XBYK",
    "aliases": [
        "ansuman-satpathy:igvf0_peaks_10x1"
    ],
    "analysis_step_version": "/analysis-step-versions/699d6738-4033-4afc-b6f3-1d82a80e0b41/",
    "assay_titles": [
        "10x multiome with MULTI-seq"
    ],
    "assembly": "GRCh38",
    "audit": {},
    "award": {
        "@id": "/awards/HG011972/",
        "component": "functional characterization"
    },
    "barcode_map_for": [],
    "checkfiles_version": "v14",
    "content_md5sum": "e7b53abe97ab8b1d768d3fbe64e04b43",
    "content_type": "peaks",
    "controlled_access": false,
    "creation_timestamp": "2025-02-14T22:58:39.317295+00:00",
    "derived_from": [
        "/tabular-files/IGVFFI9532SPYG/"
    ],
    "file_format": "bed",
    "file_format_specifications": [
        "/documents/07404908-2ed4-4286-8345-97e0fc205b36/"
    ],
    "file_format_type": "bed3",
    "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": 2482339,
    "gene_list_for": [],
    "href": "/tabular-files/IGVFFI0480XBYK/@@download/IGVFFI0480XBYK.bed.gz",
    "input_file_for": [],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/ansuman-satpathy/",
        "title": "Ansuman Satpathy, Stanford"
    },
    "loci_list_for": [],
    "md5sum": "08e56e4e9aeaf1895f7de5f509c712b4",
    "notes": "Lab did not use official IGVF consortium selected genome. Checkfiles could not recognize: KI270728.1. Therefore, validation is exempted",
    "quality_metrics": [],
    "release_timestamp": "2025-03-07T06:03:59.463487+00:00",
    "s3_uri": "s3://igvf-files/2025/02/14/41079c9c-2a35-4ca4-9e45-edde57b43857/IGVFFI0480XBYK.bed.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_peaks.bed.gz",
    "summary": "GRCh38 peaks",
    "upload_status": "validation exempted",
    "uuid": "41079c9c-2a35-4ca4-9e45-edde57b43857",
    "validation_error_detail": "{\"validate_files\": \"Error [file=/home/ubuntu/igvf-files/2025/02/14/41079c9c-2a35-4ca4-9e45-edde57b43857/IGVFFI0480XBYK.bed.gz, line=302473]: chrom KI270728.1 not found [KI270728.1\\t1791134\\t1791968]\\nAborting ... found error.\"}",
    "workflow": {
        "@id": "/workflows/IGVFWF1453HVEC/",
        "name": "Satpathy Cell Ranger",
        "uniform_pipeline": false
    }
}