IGVFFI3686XNQQ

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI3686XNQQ/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3686XNQQ",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_4307_R1"
12    ],
13    "assay_titles": [
14        "SHARE-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011986/",
19        "component": "mapping"
20    },
21    "content_md5sum": "827467dd2e6d6f8d17d6120212c3a0f9",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-08-20T15:27:22.708178+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS2234GUSK/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS2234GUSK",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0002764/",
37            "term_name": "single-cell ATAC-seq"
38        },
39        "controlled_access": true,
40        "data_use_limitation_summaries": [
41            "GRU"
42        ],
43        "file_set_type": "experimental data",
44        "samples": [
45            {
46                "@id": "/in-vitro-systems/IGVFSM8255TRGO/",
47                "@type": [
48                    "InVitroSystem",
49                    "Biosample",
50                    "Sample",
51                    "Item"
52                ],
53                "accession": "IGVFSM8255TRGO",
54                "classifications": [
55                    "pooled cell specimen",
56                    "differentiated cell specimen"
57                ],
58                "sample_terms": [
59                    {
60                        "@id": "/sample-terms/EFO_0004905/",
61                        "status": "released",
62                        "term_name": "induced pluripotent stem cell"
63                    }
64                ],
65                "status": "released",
66                "summary": "Homo sapiens induced pluripotent stem pooled differentiated cell specimen induced to hepatic oval stem cell for 7 days (cellular sub pool: SS-PKR 199)",
67                "targeted_sample_term": {
68                    "@id": "/sample-terms/CL_0002196/",
69                    "status": "released",
70                    "term_name": "hepatic oval stem cell"
71                },
72                "taxa": "Homo sapiens"
73            }
74        ],
75        "status": "released",
76        "summary": "single-cell ATAC-seq (SHARE-seq)"
77    },
78    "file_size": 4971454840,
79    "flowcell_id": "H75F7DSX5",
80    "gene_list_for": [],
81    "href": "/sequence-files/IGVFFI3686XNQQ/@@download/IGVFFI3686XNQQ.fastq.gz",
82    "illumina_read_type": "R1",
83    "input_file_for": [],
84    "integrated_in": [],
85    "lab": {
86        "@id": "/labs/jason-buenrostro/",
87        "title": "Jason Buenrostro, Broad"
88    },
89    "loci_list_for": [],
90    "maximum_read_length": 150,
91    "md5sum": "69be442786c8f80952a71e4f8a494727",
92    "mean_read_length": 150,
93    "minimum_read_length": 150,
94    "quality_metrics": [],
95    "read_count": 78369771,
96    "read_names": [
97        "Read 1"
98    ],
99    "release_timestamp": "2025-04-22T04:13:31.819394+00:00",
100    "s3_uri": "s3://igvf-restricted-files/2024/08/20/7bb68de1-a2fe-4747-9ad3-0334ecb2f52f/IGVFFI3686XNQQ.fastq.gz",
101    "schema_version": "15",
102    "seqspecs": [
103        "/configuration-files/IGVFFI7481UBJL/"
104    ],
105    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
106    "sequencing_platform": {
107        "@id": "/platform-terms/EFO_0008637/",
108        "status": "released",
109        "term_name": "Illumina NovaSeq 6000"
110    },
111    "sequencing_run": 4307,
112    "status": "released",
113    "submitted_by": {
114        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
115        "title": "Siddarth Wekhande"
116    },
117    "submitted_file_name": "gs://broad-epi-ss-lane-subsets/SS-CoPA-582_L3_SS-PKR-199_2022-APRIL-R1-PLATE2-3rd-THIRD_R1.fastq.gz",
118    "summary": "R1 reads from sequencing run 4307",
119    "upload_status": "validated",
120    "uuid": "7bb68de1-a2fe-4747-9ad3-0334ecb2f52f"
121}