IGVFFI9846ECMS

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI9846ECMS/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9846ECMS",
10    "aliases": [
11        "buenrostro-bernstein:surya-HuIBD01-1-orgs-more-ATAC.R1.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": "v17",
22    "content_md5sum": "968b773bc5729e09de1adcc9651293bc",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2025-02-20T20:47:07.906352+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": 9872707806,
75    "gene_list_for": [],
76    "href": "/sequence-files/IGVFFI9846ECMS/@@download/IGVFFI9846ECMS.fastq.gz",
77    "illumina_read_type": "R1",
78    "input_file_for": [
79        "/tabular-files/IGVFFI9764GKVR/"
80    ],
81    "integrated_in": [],
82    "lab": {
83        "@id": "/labs/jason-buenrostro/",
84        "title": "Jason Buenrostro, Broad"
85    },
86    "loci_list_for": [],
87    "maximum_read_length": 50,
88    "md5sum": "20791df01e1ea5aaa15ac135aa01eb9e",
89    "mean_read_length": 49.06,
90    "minimum_read_length": 20,
91    "quality_metrics": [],
92    "read_count": 299990437,
93    "read_names": [
94        "Read 1"
95    ],
96    "release_timestamp": "2025-03-26T17:33:44.260626+00:00",
97    "s3_uri": "s3://igvf-restricted-files/2025/02/20/084c1c10-cf73-446f-940d-62c05a611b8b/IGVFFI9846ECMS.fastq.gz",
98    "schema_version": "15",
99    "seqspecs": [
100        "/configuration-files/IGVFFI7971ZCIE/"
101    ],
102    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
103    "sequencing_platform": {
104        "@id": "/platform-terms/EFO_0008637/",
105        "status": "released",
106        "term_name": "Illumina NovaSeq 6000"
107    },
108    "sequencing_run": 1,
109    "status": "released",
110    "submitted_by": {
111        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
112        "title": "Siddarth Wekhande"
113    },
114    "submitted_file_name": "gs://sw-igvf-submission/surya-mouse-colitis/submit-fqs/HuIBD01-1-orgs-more-ATAC.R1.fastq.gz",
115    "summary": "R1 reads from sequencing run 1",
116    "upload_status": "validated",
117    "uuid": "084c1c10-cf73-446f-940d-62c05a611b8b"
118}