IGVFFI0162FERT

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI0162FERT/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0162FERT",
10    "aliases": [
11        "buenrostro-bernstein:surya-DSS16-prim-9K-2-ATAC.R2.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": "v14",
22    "content_md5sum": "c8877b5a80dcc05e31028944f3969f3d",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-02-07T01:59:54.720620+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS3212RENM/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS3212RENM",
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/IGVFSM7017UXAA/",
44                "@type": [
45                    "PrimaryCell",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM7017UXAA",
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": 5032753041,
70    "gene_list_for": [],
71    "href": "/sequence-files/IGVFFI0162FERT/@@download/IGVFFI0162FERT.fastq.gz",
72    "illumina_read_type": "R2",
73    "input_file_for": [
74        "/tabular-files/IGVFFI0855DXJQ/"
75    ],
76    "integrated_in": [],
77    "lab": {
78        "@id": "/labs/jason-buenrostro/",
79        "title": "Jason Buenrostro, Broad"
80    },
81    "loci_list_for": [],
82    "maximum_read_length": 100,
83    "md5sum": "143dec9020e34be0f9ad43c134952468",
84    "mean_read_length": 90.2,
85    "minimum_read_length": 20,
86    "quality_metrics": [],
87    "read_count": 89522520,
88    "read_names": [
89        "Read 2"
90    ],
91    "release_timestamp": "2025-03-26T17:34:32.398927+00:00",
92    "s3_uri": "s3://igvf-files/2025/02/07/f6ac5b5e-c317-469b-a8fe-6190e4a173d0/IGVFFI0162FERT.fastq.gz",
93    "schema_version": "15",
94    "seqspecs": [
95        "/configuration-files/IGVFFI2836UUTC/"
96    ],
97    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
98    "sequencing_platform": {
99        "@id": "/platform-terms/EFO_0008637/",
100        "status": "released",
101        "term_name": "Illumina NovaSeq 6000"
102    },
103    "sequencing_run": 4,
104    "status": "released",
105    "submitted_by": {
106        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
107        "title": "Siddarth Wekhande"
108    },
109    "submitted_file_name": "gs://sw-igvf-submission/surya-mouse-colitis/submit-fqs/DSS16-prim-9K-2-ATAC.R2.fastq.gz",
110    "submitter_comment": "DSS16-prim-6k-2_P1.06",
111    "summary": "R2 reads from sequencing run 4",
112    "upload_status": "validated",
113    "uuid": "f6ac5b5e-c317-469b-a8fe-6190e4a173d0"
114}