IGVFFI9570VQUJ

{
    "@context": "/terms/",
    "@id": "/sequence-files/IGVFFI9570VQUJ/",
    "@type": [
        "SequenceFile",
        "File",
        "Item"
    ],
    "accession": "IGVFFI9570VQUJ",
    "aliases": [
        "jay-shendure:scATAC_mEBs_rep1_day21_10XlaneA_reseq_R2"
    ],
    "assay_titles": [
        "scATAC-seq"
    ],
    "audit": {},
    "award": {
        "@id": "/awards/HG011966/",
        "component": "functional characterization"
    },
    "content_md5sum": "0687345eef5346d4f10569cb0035e492",
    "content_type": "reads",
    "controlled_access": false,
    "creation_timestamp": "2023-12-09T00:57:35.589555+00:00",
    "externally_hosted": false,
    "file_format": "fastq",
    "file_set": {
        "@id": "/measurement-sets/IGVFDS1560LMQZ/",
        "accession": "IGVFDS1560LMQZ",
        "file_set_type": "experimental data",
        "samples": [
            {
                "@id": "/in-vitro-systems/IGVFSM9475FJUV/",
                "accession": "IGVFSM9475FJUV",
                "classifications": [
                    "differentiated cell specimen"
                ],
                "sample_terms": [
                    {
                        "@id": "/sample-terms/EFO_0004038/",
                        "term_name": "mouse embryonic stem cell"
                    }
                ],
                "summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days (cellular sub pool: 10XlaneA), male, Mus musculus WD44",
                "targeted_sample_term": {
                    "@id": "/sample-terms/UBERON_0014374/",
                    "term_name": "embryoid body"
                },
                "taxa": "Mus musculus"
            }
        ],
        "summary": "scATAC-seq"
    },
    "file_size": 3532735641,
    "flowcell_id": "H3HFJBGXG",
    "gene_list_for": [],
    "href": "/sequence-files/IGVFFI9570VQUJ/@@download/IGVFFI9570VQUJ.fastq.gz",
    "illumina_read_type": "R2",
    "input_file_for": [
        "/signal-files/IGVFFI9468KRLQ/",
        "/signal-files/IGVFFI4530JOCA/",
        "/signal-files/IGVFFI4106YTGZ/",
        "/signal-files/IGVFFI6250RJNE/",
        "/signal-files/IGVFFI4871DVXE/",
        "/signal-files/IGVFFI8400FXRX/",
        "/signal-files/IGVFFI9916JAHE/"
    ],
    "integrated_in": [],
    "lab": {
        "@id": "/labs/jay-shendure/",
        "title": "Jay Shendure, UW"
    },
    "lane": 1,
    "loci_list_for": [],
    "maximum_read_length": 50,
    "md5sum": "0bc01f7c645ef3f2984579e189b68941",
    "mean_read_length": 50,
    "minimum_read_length": 50,
    "read_count": 101539213,
    "release_timestamp": "2024-07-09T20:16:42.036915+00:00",
    "s3_uri": "s3://igvf-files/2023/12/09/9edf8313-734a-400c-959a-deb58f566d97/IGVFFI9570VQUJ.fastq.gz",
    "schema_version": "14",
    "seqspecs": [
        "/configuration-files/IGVFFI1006OXIG/"
    ],
    "sequencing_kit": "NextSeq 500/550 High-Output v2.5 Kit",
    "sequencing_platform": {
        "@id": "/platform-terms/EFO_0009173/",
        "term_name": "Illumina NextSeq 500"
    },
    "sequencing_run": 2,
    "status": "released",
    "submitted_by": {
        "@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
        "title": "Beth Martin"
    },
    "submitted_file_name": "/net/shendure/vol8/projects/JBL/GEO_scATAC_EB_correction_nobackup/scATAC_mEBs/scATAC_mEBs_d21_crispri_rep1_lane_a_reseq_R2_001.fastq.gz",
    "summary": "R2 reads from sequencing run 2",
    "upload_status": "validated",
    "uuid": "9edf8313-734a-400c-959a-deb58f566d97"
}