IGVFFI2509KGDL

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI2509KGDL/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI2509KGDL",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_4365_barcode"
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": "74da921f02774f2ae069d4959210aedd",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2025-03-25T02:23:46.757394+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS8259EHVC/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS8259EHVC",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0002764/",
38            "term_name": "single-cell ATAC-seq"
39        },
40        "controlled_access": true,
41        "data_use_limitation_summaries": [
42            "GRU"
43        ],
44        "file_set_type": "experimental data",
45        "samples": [
46            {
47                "@id": "/in-vitro-systems/IGVFSM8891SAOK/",
48                "@type": [
49                    "InVitroSystem",
50                    "Biosample",
51                    "Sample",
52                    "Item"
53                ],
54                "accession": "IGVFSM8891SAOK",
55                "classifications": [
56                    "cell line",
57                    "pooled cell specimen"
58                ],
59                "sample_terms": [
60                    {
61                        "@id": "/sample-terms/EFO_0004905/",
62                        "status": "released",
63                        "term_name": "induced pluripotent stem cell"
64                    }
65                ],
66                "status": "released",
67                "summary": "Homo sapiens induced pluripotent stem pooled cell specimen (cellular sub pool: SS-PKR 172)",
68                "taxa": "Homo sapiens"
69            }
70        ],
71        "status": "released",
72        "summary": "single-cell ATAC-seq (SHARE-seq)"
73    },
74    "file_size": 2228668826,
75    "flowcell_id": "H75F7DSX5",
76    "gene_list_for": [],
77    "href": "/sequence-files/IGVFFI2509KGDL/@@download/IGVFFI2509KGDL.fastq.gz",
78    "illumina_read_type": "I1",
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": 99,
87    "md5sum": "3aea9e2eacc74c7b23bc007acb79ff36",
88    "mean_read_length": 99,
89    "minimum_read_length": 99,
90    "quality_metrics": [],
91    "read_count": 102477944,
92    "read_names": [
93        "Barcode index"
94    ],
95    "release_timestamp": "2025-04-22T04:13:53.467911+00:00",
96    "s3_uri": "s3://igvf-restricted-files/2025/03/25/3df63514-0916-455e-8ca9-3f4965b421a2/IGVFFI2509KGDL.fastq.gz",
97    "schema_version": "15",
98    "seqspecs": [
99        "/configuration-files/IGVFFI4559ZDST/"
100    ],
101    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
102    "sequencing_platform": {
103        "@id": "/platform-terms/EFO_0008637/",
104        "status": "released",
105        "term_name": "Illumina NovaSeq 6000"
106    },
107    "sequencing_run": 4365,
108    "status": "released",
109    "submitted_by": {
110        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
111        "title": "Siddarth Wekhande"
112    },
113    "submitted_file_name": "gs://fc-bde04173-e601-40f3-84b5-6c7f0d9be441/submissions/final-outputs/07e69bd4-7fc9-44f3-915e-796979c95b5f/wf_create_fastq_barcode/eb5859d4-fa9d-4fae-a32d-0f2dd76a20f7/call-create_fastq_barcode/shard-0/SS-CoPA-540_L2_SS-PKR-172_SS-V1-1st-THIRD_R2.barcode_file.fastq.gz",
114    "summary": "I1 reads from sequencing run 4365",
115    "upload_status": "validated",
116    "uuid": "3df63514-0916-455e-8ca9-3f4965b421a2"
117}