IGVFFI0239YYFZ

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI0239YYFZ/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0239YYFZ",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_924_R1"
12    ],
13    "assay_titles": [
14        "SHARE-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011986/",
19        "component": "mapping"
20    },
21    "content_md5sum": "9070d0528ed8684004b395acef0effdf",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-08-20T15:07:57.484577+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS3343IRTP/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS3343IRTP",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0002764/",
37            "term_name": "single-cell ATAC-seq"
38        },
39        "file_set_type": "experimental data",
40        "samples": [
41            {
42                "@id": "/in-vitro-systems/IGVFSM3115GZZM/",
43                "@type": [
44                    "InVitroSystem",
45                    "Biosample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM3115GZZM",
50                "classifications": [
51                    "pooled cell specimen",
52                    "differentiated cell specimen"
53                ],
54                "sample_terms": [
55                    {
56                        "@id": "/sample-terms/EFO_0004905/",
57                        "status": "released",
58                        "term_name": "induced pluripotent stem cell"
59                    }
60                ],
61                "status": "released",
62                "summary": "Homo sapiens induced pluripotent stem pooled differentiated cell specimen induced to hepatic oval stem cell for 4 days (cellular sub pool: SS-PKR 171)",
63                "targeted_sample_term": {
64                    "@id": "/sample-terms/CL_0002196/",
65                    "status": "released",
66                    "term_name": "hepatic oval stem cell"
67                },
68                "taxa": "Homo sapiens"
69            }
70        ],
71        "status": "released",
72        "summary": "single-cell ATAC-seq (SHARE-seq)"
73    },
74    "file_size": 198584335,
75    "flowcell_id": "22773CLT3",
76    "gene_list_for": [],
77    "href": "/sequence-files/IGVFFI0239YYFZ/@@download/IGVFFI0239YYFZ.fastq.gz",
78    "illumina_read_type": "R1",
79    "input_file_for": [],
80    "integrated_in": [],
81    "lab": {
82        "@id": "/labs/jason-buenrostro/",
83        "title": "Jason Buenrostro, Broad"
84    },
85    "loci_list_for": [],
86    "maximum_read_length": 150,
87    "md5sum": "1b0e102b9ca083aa94f4b534b1d02017",
88    "mean_read_length": 150,
89    "minimum_read_length": 150,
90    "quality_metrics": [],
91    "read_count": 3529699,
92    "read_names": [
93        "Read 1"
94    ],
95    "release_timestamp": "2025-04-10T20:56:09.445027+00:00",
96    "s3_uri": "s3://igvf-restricted-files/2024/08/20/f1fe3811-e19f-4115-9283-f09cb4964c12/IGVFFI0239YYFZ.fastq.gz",
97    "schema_version": "15",
98    "seqspecs": [
99        "/configuration-files/IGVFFI5090GWRQ/"
100    ],
101    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
102    "sequencing_platform": {
103        "@id": "/platform-terms/EFO_0022840/",
104        "status": "released",
105        "term_name": "Illumina NovaSeq X"
106    },
107    "sequencing_run": 924,
108    "status": "released",
109    "submitted_by": {
110        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
111        "title": "Siddarth Wekhande"
112    },
113    "submitted_file_name": "gs://broad-epi-ss-lane-subsets/SS-CoPA-937_L1_SS-PKR-171_2022-APRIL-R1-PLATE2-2nd-THIRD_R1.fastq.gz",
114    "summary": "R1 reads from sequencing run 924",
115    "upload_status": "validated",
116    "uuid": "f1fe3811-e19f-4115-9283-f09cb4964c12"
117}