IGVFFI5346GSEV

{
    "@context": "/terms/",
    "@id": "/sequence-files/IGVFFI5346GSEV/",
    "@type": [
        "SequenceFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI5346GSEV",
    "aliases": [
        "ansuman-satpathy:igvf_exp17_atac_10x1_NGS3_r2"
    ],
    "assay_titles": [
        "10x multiome with MULTI-seq"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG012076/",
        "component": "mapping"
    },
    "checkfiles_version": "v14",
    "content_md5sum": "ec6b75bf96fb2cab86bc429bb9d4988e",
    "content_type": "reads",
    "controlled_access": false,
    "creation_timestamp": "2025-01-28T03:32:46.146726+00:00",
    "externally_hosted": false,
    "file_format": "fastq",
    "file_set": {
        "@id": "/measurement-sets/IGVFDS9970KYUU/",
        "accession": "IGVFDS9970KYUU",
        "file_set_type": "experimental data",
        "samples": [
            {
                "@id": "/multiplexed-samples/IGVFSM7909ETQJ/",
                "accession": "IGVFSM7909ETQJ",
                "classifications": [
                    "differentiated cell specimen",
                    "multiplexed sample"
                ],
                "disease_terms": [],
                "modifications": [],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0009320/",
                        "status": "released",
                        "term_name": "RUES2"
                    }
                ],
                "status": "released",
                "summary": "multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples",
                "taxa": "Homo sapiens",
                "treatments": []
            }
        ],
        "status": "released",
        "summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
    },
    "file_size": 3791885553,
    "flowcell_id": "22NF33LT3",
    "gene_list_for": [],
    "href": "/sequence-files/IGVFFI5346GSEV/@@download/IGVFFI5346GSEV.fastq.gz",
    "illumina_read_type": "R2",
    "input_file_for": [
        "/tabular-files/IGVFFI9217VKJO/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/ansuman-satpathy/",
        "title": "Ansuman Satpathy, Stanford"
    },
    "lane": 7,
    "loci_list_for": [],
    "maximum_read_length": 24,
    "md5sum": "e0a6b6ffb8ab89b5bc973f8113e7ed23",
    "mean_read_length": 24,
    "minimum_read_length": 24,
    "quality_metrics": [],
    "read_count": 213720607,
    "read_names": [
        "Barcode index"
    ],
    "release_timestamp": "2025-03-07T01:16:37.119383+00:00",
    "s3_uri": "s3://igvf-files/2025/01/28/2c85f7c8-31e0-42d5-8dbc-92f31c86cfb1/IGVFFI5346GSEV.fastq.gz",
    "schema_version": "15",
    "seqspecs": [
        "/configuration-files/IGVFFI8425EZEQ/"
    ],
    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
    "sequencing_platform": {
        "@id": "/platform-terms/EFO_0022840/",
        "status": "released",
        "term_name": "Illumina NovaSeq X"
    },
    "sequencing_run": 1,
    "status": "released",
    "submitted_by": {
        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
        "title": "Christopher Mcginnis"
    },
    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf17/ATAC/CMAS19_ATAC1_S44_L007_R2_001.fastq.gz",
    "summary": "R2 reads from sequencing run 1",
    "upload_status": "validated",
    "uuid": "2c85f7c8-31e0-42d5-8dbc-92f31c86cfb1"
}