IGVFFI1517VBJH

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI1517VBJH/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI1517VBJH",
10    "aliases": [
11        "buenrostro-bernstein:surya-HuIBD01-1-orgs-more-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": "08a579fe281616809b1676f7179da7fa",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2025-03-14T15:49:11.262501+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS2259DWKL/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS2259DWKL",
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": "/in-vitro-systems/IGVFSM7625PGWV/",
44                "@type": [
45                    "InVitroSystem",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM7625PGWV",
51                "classifications": [
52                    "organoid"
53                ],
54                "sample_terms": [
55                    {
56                        "@id": "/sample-terms/CL_0011108/",
57                        "status": "released",
58                        "term_name": "colon epithelial cell"
59                    }
60                ],
61                "status": "released",
62                "summary": "Homo sapiens colon epithelial cell organoid induced to colon for 7 days",
63                "targeted_sample_term": {
64                    "@id": "/sample-terms/UBERON_0001155/",
65                    "status": "released",
66                    "term_name": "colon"
67                },
68                "taxa": "Homo sapiens"
69            }
70        ],
71        "status": "released",
72        "summary": "single-cell ATAC-seq (SHARE-seq)"
73    },
74    "file_size": 5206068496,
75    "gene_list_for": [],
76    "href": "/sequence-files/IGVFFI1517VBJH/@@download/IGVFFI1517VBJH.fastq.gz",
77    "illumina_read_type": "I1",
78    "input_file_for": [],
79    "integrated_in": [],
80    "lab": {
81        "@id": "/labs/jason-buenrostro/",
82        "title": "Jason Buenrostro, Broad"
83    },
84    "loci_list_for": [],
85    "maximum_read_length": 32,
86    "md5sum": "46da9565e75c16a169d881d83901e756",
87    "mean_read_length": 32,
88    "minimum_read_length": 32,
89    "quality_metrics": [],
90    "read_count": 299990437,
91    "read_names": [
92        "Barcode index"
93    ],
94    "release_timestamp": "2025-03-26T17:33:44.212305+00:00",
95    "s3_uri": "s3://igvf-restricted-files/2025/03/14/94b93923-9a1d-441a-af9c-3cc4fec3f153/IGVFFI1517VBJH.fastq.gz",
96    "schema_version": "15",
97    "seqspecs": [
98        "/configuration-files/IGVFFI7971ZCIE/"
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": 1,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
110        "title": "Siddarth Wekhande"
111    },
112    "submitted_file_name": "gs://sw-igvf-submission/surya-mouse-colitis/submit-fqs/barcode-file/HuIBD01-1-orgs-more-ATAC.barcode.fastq.gz",
113    "summary": "I1 reads from sequencing run 1",
114    "upload_status": "validated",
115    "uuid": "94b93923-9a1d-441a-af9c-3cc4fec3f153"
116}