IGVFFI6773USPP

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI6773USPP/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6773USPP",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_5372_R2"
12    ],
13    "assay_titles": [
14        "SHARE-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011986/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v17",
22    "content_md5sum": "876c06acd907d24833dde050cf6ddab9",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-03-09T16:00:09.658748+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS8225URBF/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS8225URBF",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0002764/",
38            "term_name": "single-cell ATAC-seq"
39        },
40        "file_set_type": "experimental data",
41        "samples": [
42            {
43                "@id": "/tissues/IGVFSM4121TWUU/",
44                "@type": [
45                    "Tissue",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM4121TWUU",
51                "classifications": [
52                    "tissue"
53                ],
54                "sample_terms": [
55                    {
56                        "@id": "/sample-terms/UBERON_0000955/",
57                        "status": "released",
58                        "term_name": "brain"
59                    }
60                ],
61                "status": "released",
62                "summary": "Mus musculus C57BL/6 brain tissue (cellular sub pool: SS-PKR 435)",
63                "taxa": "Mus musculus"
64            }
65        ],
66        "status": "released",
67        "summary": "single-cell ATAC-seq (SHARE-seq)"
68    },
69    "file_size": 11325090314,
70    "flowcell_id": "22KHF5LT3",
71    "gene_list_for": [],
72    "href": "/sequence-files/IGVFFI6773USPP/@@download/IGVFFI6773USPP.fastq.gz",
73    "illumina_read_type": "R2",
74    "input_file_for": [
75        "/alignment-files/IGVFFI4228AGRI/",
76        "/tabular-files/IGVFFI6974VPAB/"
77    ],
78    "integrated_in": [],
79    "lab": {
80        "@id": "/labs/jason-buenrostro/",
81        "title": "Jason Buenrostro, Broad"
82    },
83    "loci_list_for": [],
84    "maximum_read_length": 199,
85    "md5sum": "55ad244bb1fcc6d5114f5eeb98df0417",
86    "mean_read_length": 199,
87    "minimum_read_length": 199,
88    "quality_metrics": [],
89    "read_count": 178822186,
90    "read_names": [
91        "Read 2",
92        "Barcode index"
93    ],
94    "release_timestamp": "2025-03-28T21:22:42.874534+00:00",
95    "s3_uri": "s3://igvf-files/2025/03/09/1ff11213-654f-4d6f-a2e4-7faad4ded6c6/IGVFFI6773USPP.fastq.gz",
96    "schema_version": "15",
97    "seqspecs": [
98        "/configuration-files/IGVFFI5373MZTL/"
99    ],
100    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
101    "sequencing_platform": {
102        "@id": "/platform-terms/EFO_0008637/",
103        "status": "released",
104        "term_name": "Illumina NovaSeq 6000"
105    },
106    "sequencing_run": 5372,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
110        "title": "Siddarth Wekhande"
111    },
112    "submitted_file_name": "gs://broad-epi-ss-lane-subsets/SS-CoPA-1577_L3_SS-PKR-435_2022-APRIL-R1-SET-OF-192_R2.fastq.gz",
113    "summary": "R2 reads from sequencing run 5372",
114    "upload_status": "validated",
115    "uuid": "1ff11213-654f-4d6f-a2e4-7faad4ded6c6"
116}