IGVFFI7512KRYI

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI7512KRYI/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI7512KRYI",
10    "aliases": [
11        "buenrostro-bernstein:surya-DSS05-prim3-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": "3079f2f276fc3b2399a14f1ea1d8b0ba",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-02-07T01:59:48.973363+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS9364TNAM/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS9364TNAM",
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/IGVFSM0354RWOF/",
44                "@type": [
45                    "PrimaryCell",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM0354RWOF",
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": 3488883525,
70    "gene_list_for": [],
71    "href": "/sequence-files/IGVFFI7512KRYI/@@download/IGVFFI7512KRYI.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": 50,
83    "md5sum": "e287954412e5c723b14a26a5f632f22f",
84    "mean_read_length": 49.43,
85    "minimum_read_length": 20,
86    "quality_metrics": [],
87    "read_count": 100518150,
88    "read_names": [
89        "Read 2"
90    ],
91    "release_timestamp": "2025-03-26T17:34:53.497070+00:00",
92    "s3_uri": "s3://igvf-files/2025/02/07/af6d9118-9272-4412-bbb4-1bf4e918f9cc/IGVFFI7512KRYI.fastq.gz",
93    "schema_version": "15",
94    "seqspecs": [
95        "/configuration-files/IGVFFI0331EHQR/"
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": 2,
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/DSS05-prim3-ATAC.R2.fastq.gz",
110    "submitter_comment": "DSS05-prim-12k-2,DSS05-prim-12k-3_P1.61,DSS05-prim-12k-4_P1.05",
111    "summary": "R2 reads from sequencing run 2",
112    "upload_status": "validated",
113    "uuid": "af6d9118-9272-4412-bbb4-1bf4e918f9cc"
114}