IGVFFI5619PNBW

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI5619PNBW/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI5619PNBW",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_966_R2"
12    ],
13    "assay_titles": [
14        "SHARE-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011986/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v20",
22    "content_md5sum": "33eb481872b28cf5885184334f3fd628",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2024-08-20T15:09:34.557328+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS3343IRTP/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS3343IRTP",
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/IGVFSM3115GZZM/",
44                "@type": [
45                    "InVitroSystem",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM3115GZZM",
51                "classifications": [
52                    "pooled cell specimen",
53                    "differentiated cell specimen"
54                ],
55                "sample_terms": [
56                    {
57                        "@id": "/sample-terms/EFO_0004905/",
58                        "status": "released",
59                        "term_name": "induced pluripotent stem cell"
60                    }
61                ],
62                "status": "released",
63                "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)",
64                "targeted_sample_term": {
65                    "@id": "/sample-terms/CL_0002196/",
66                    "status": "released",
67                    "term_name": "hepatic oval stem cell"
68                },
69                "taxa": "Homo sapiens"
70            }
71        ],
72        "status": "released",
73        "summary": "single-cell ATAC-seq (SHARE-seq)"
74    },
75    "file_size": 96270471,
76    "flowcell_id": "22773CLT3",
77    "gene_list_for": [],
78    "href": "/sequence-files/IGVFFI5619PNBW/@@download/IGVFFI5619PNBW.fastq.gz",
79    "illumina_read_type": "R2",
80    "input_file_for": [],
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": "ab1d64b19119b6f8a95cba58b44ea074",
89    "mean_read_length": 50,
90    "minimum_read_length": 50,
91    "quality_metrics": [],
92    "read_count": 3550013,
93    "read_names": [
94        "Read 2"
95    ],
96    "release_timestamp": "2025-04-10T20:56:09.324156+00:00",
97    "s3_uri": "s3://igvf-restricted-files/2024/08/20/7b562aa3-0130-4c02-a6ba-cfeb23a5ed8c/IGVFFI5619PNBW.fastq.gz",
98    "schema_version": "15",
99    "seqspecs": [
100        "/configuration-files/IGVFFI3774LEEC/"
101    ],
102    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
103    "sequencing_platform": {
104        "@id": "/platform-terms/EFO_0022840/",
105        "status": "released",
106        "term_name": "Illumina NovaSeq X"
107    },
108    "sequencing_run": 966,
109    "status": "released",
110    "submitted_by": {
111        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
112        "title": "Siddarth Wekhande"
113    },
114    "submitted_file_name": "gs://fc-bde04173-e601-40f3-84b5-6c7f0d9be441/submissions/final-outputs/07e69bd4-7fc9-44f3-915e-796979c95b5f/wf_create_fastq_barcode/a387e28c-eb59-4fd8-8860-dde4736a9a48/call-create_fastq_barcode/shard-13/SS-CoPA-937_L2_SS-PKR-171_2022-APRIL-R1-PLATE2-2nd-THIRD_R2.R2.fastq.gz",
115    "summary": "R2 reads from sequencing run 966",
116    "upload_status": "validated",
117    "uuid": "7b562aa3-0130-4c02-a6ba-cfeb23a5ed8c"
118}