IGVFFI4067LHOZ

{
    "@context": "/terms/",
    "@id": "/sequence-files/IGVFFI4067LHOZ/",
    "@type": [
        "SequenceFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI4067LHOZ",
    "aliases": [
        "ansuman-satpathy:igvf_exp6_atac_10x2_NGS1_r2"
    ],
    "assay_titles": [
        "10x multiome with MULTI-seq"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG012076/",
        "component": "mapping"
    },
    "content_md5sum": "efbe2e078b9e1179aa57f00c92d435ce",
    "content_type": "reads",
    "controlled_access": false,
    "creation_timestamp": "2024-07-22T17:29:41.744274+00:00",
    "externally_hosted": false,
    "file_format": "fastq",
    "file_set": {
        "@id": "/measurement-sets/IGVFDS6310VXMX/",
        "accession": "IGVFDS6310VXMX",
        "file_set_type": "experimental data",
        "samples": [
            {
                "@id": "/multiplexed-samples/IGVFSM8961ZZQN/",
                "accession": "IGVFSM8961ZZQN",
                "classifications": [
                    "cell line",
                    "differentiated cell specimen",
                    "multiplexed sample"
                ],
                "disease_terms": [],
                "modifications": [],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0003042/",
                        "status": "released",
                        "term_name": "H1-hESC"
                    }
                ],
                "status": "released",
                "summary": "multiplexed sample: H1-hESC differentiated cell specimen induced to islet of Langerhans for 18 days, male, Homo sapiens; H1-hESC differentiated cell specimen induced to islet of Langerhans for 7 days, male, Homo sapiens; ... and 6 more samples",
                "taxa": "Homo sapiens",
                "treatments": []
            }
        ],
        "status": "released",
        "summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
    },
    "file_size": 4379133868,
    "flowcell_id": "223JH2LT3",
    "gene_list_for": [],
    "href": "/sequence-files/IGVFFI4067LHOZ/@@download/IGVFFI4067LHOZ.fastq.gz",
    "illumina_read_type": "R2",
    "input_file_for": [
        "/tabular-files/IGVFFI8020JTQX/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/ansuman-satpathy/",
        "title": "Ansuman Satpathy, Stanford"
    },
    "lane": 5,
    "loci_list_for": [],
    "maximum_read_length": 24,
    "md5sum": "c3a78a98fbd7176b121d57d0e9abe608",
    "mean_read_length": 24,
    "minimum_read_length": 24,
    "quality_metrics": [],
    "read_count": 270005000,
    "read_names": [
        "Barcode index"
    ],
    "release_timestamp": "2025-03-07T01:12:44.234757+00:00",
    "s3_uri": "s3://igvf-files/2024/07/22/5bc85ff2-70dd-40d9-9d3a-deea62ff95e8/IGVFFI4067LHOZ.fastq.gz",
    "schema_version": "15",
    "seqspecs": [
        "/configuration-files/IGVFFI6265KQCD/"
    ],
    "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/projects/igvf/Projects/230522_IGVF6_McGinnis/ATAC/FASTQ/ATAC_2_S6_L005_R2_001.fastq.gz",
    "summary": "R2 reads from sequencing run 1",
    "upload_status": "validated",
    "uuid": "5bc85ff2-70dd-40d9-9d3a-deea62ff95e8"
}