IGVFFI9072DUME

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI9072DUME/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9072DUME",
10    "aliases": [
11        "buenrostro-bernstein:surya-DSS17-18-prim-2-ATAC.barcode.fastq.gz"
12    ],
13    "assay_titles": [
14        "SHARE-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011986/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v19",
22    "content_md5sum": "927ff6ccdc3c9fe097b40ac974d98df0",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-03-14T15:50:14.958926+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS9896MQFE/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS9896MQFE",
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": "/primary-cells/IGVFSM1242TZJM/",
44                "@type": [
45                    "PrimaryCell",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM1242TZJM",
51                "classifications": [
52                    "primary cell"
53                ],
54                "sample_terms": [
55                    {
56                        "@id": "/sample-terms/UBERON_0001155/",
57                        "status": "released",
58                        "term_name": "colon"
59                    }
60                ],
61                "status": "released",
62                "summary": "Mus musculus C57BL/6J colon cell",
63                "taxa": "Mus musculus"
64            }
65        ],
66        "status": "released",
67        "summary": "single-cell ATAC-seq (SHARE-seq)"
68    },
69    "file_size": 3087262334,
70    "gene_list_for": [],
71    "href": "/sequence-files/IGVFFI9072DUME/@@download/IGVFFI9072DUME.fastq.gz",
72    "illumina_read_type": "I1",
73    "input_file_for": [],
74    "integrated_in": [],
75    "lab": {
76        "@id": "/labs/jason-buenrostro/",
77        "title": "Jason Buenrostro, Broad"
78    },
79    "loci_list_for": [],
80    "maximum_read_length": 32,
81    "md5sum": "27e8e89a0cf694892c645a930f60ff08",
82    "mean_read_length": 32,
83    "minimum_read_length": 32,
84    "quality_metrics": [],
85    "read_count": 177181258,
86    "read_names": [
87        "Barcode index"
88    ],
89    "release_timestamp": "2025-03-26T17:34:14.873247+00:00",
90    "s3_uri": "s3://igvf-files/2025/03/14/3968d39c-9c11-444d-bbb3-ff7a90601050/IGVFFI9072DUME.fastq.gz",
91    "schema_version": "15",
92    "seqspecs": [
93        "/configuration-files/IGVFFI2690LYCN/"
94    ],
95    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
96    "sequencing_platform": {
97        "@id": "/platform-terms/EFO_0008637/",
98        "status": "released",
99        "term_name": "Illumina NovaSeq 6000"
100    },
101    "sequencing_run": 5,
102    "status": "released",
103    "submitted_by": {
104        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
105        "title": "Siddarth Wekhande"
106    },
107    "submitted_file_name": "gs://sw-igvf-submission/surya-mouse-colitis/submit-fqs/barcode-file/DSS17-18-prim-2-ATAC.barcode.fastq.gz",
108    "summary": "I1 reads from sequencing run 5",
109    "upload_status": "validated",
110    "uuid": "3968d39c-9c11-444d-bbb3-ff7a90601050"
111}