IGVFFI4671XAXZ

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI4671XAXZ/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI4671XAXZ",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_3858_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": "fb2d6fb72c2092de84707b3b15eb9f7e",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2024-08-20T15:14:46.824807+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS0457UBHV/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS0457UBHV",
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/IGVFSM7511YRMC/",
48                "@type": [
49                    "InVitroSystem",
50                    "Biosample",
51                    "Sample",
52                    "Item"
53                ],
54                "accession": "IGVFSM7511YRMC",
55                "classifications": [
56                    "pooled cell specimen",
57                    "differentiated 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 differentiated cell specimen induced to hepatic oval stem cell for 7 days (cellular sub pool: SS-PKR 208)",
68                "targeted_sample_term": {
69                    "@id": "/sample-terms/CL_0002196/",
70                    "status": "released",
71                    "term_name": "hepatic oval stem cell"
72                },
73                "taxa": "Homo sapiens"
74            }
75        ],
76        "status": "released",
77        "summary": "single-cell ATAC-seq (SHARE-seq)"
78    },
79    "file_size": 237390792,
80    "flowcell_id": "22523KLT3",
81    "gene_list_for": [],
82    "href": "/sequence-files/IGVFFI4671XAXZ/@@download/IGVFFI4671XAXZ.fastq.gz",
83    "illumina_read_type": "R2",
84    "input_file_for": [],
85    "integrated_in": [],
86    "lab": {
87        "@id": "/labs/jason-buenrostro/",
88        "title": "Jason Buenrostro, Broad"
89    },
90    "loci_list_for": [],
91    "maximum_read_length": 50,
92    "md5sum": "6566371b44e9a60927cf5e9000ea74c1",
93    "mean_read_length": 50,
94    "minimum_read_length": 50,
95    "quality_metrics": [],
96    "read_count": 9125477,
97    "read_names": [
98        "Read 2"
99    ],
100    "release_timestamp": "2025-04-22T04:08:31.148528+00:00",
101    "s3_uri": "s3://igvf-restricted-files/2024/08/20/5e6b411c-37f4-4e09-b2e7-ae5947047768/IGVFFI4671XAXZ.fastq.gz",
102    "schema_version": "15",
103    "seqspecs": [
104        "/configuration-files/IGVFFI0717YMXL/"
105    ],
106    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
107    "sequencing_platform": {
108        "@id": "/platform-terms/EFO_0022840/",
109        "status": "released",
110        "term_name": "Illumina NovaSeq X"
111    },
112    "sequencing_run": 3858,
113    "status": "released",
114    "submitted_by": {
115        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
116        "title": "Siddarth Wekhande"
117    },
118    "submitted_file_name": "gs://fc-bde04173-e601-40f3-84b5-6c7f0d9be441/submissions/final-outputs/07e69bd4-7fc9-44f3-915e-796979c95b5f/wf_create_fastq_barcode/52fe6928-9035-4ca7-a1ef-2521d08f1dc0/call-create_fastq_barcode/shard-11/SS-CoPA-796_L4_SS-PKR-208_2022-APRIL-R1-PLATE2-3rd-THIRD_R2.R2.fastq.gz",
119    "summary": "R2 reads from sequencing run 3858",
120    "upload_status": "validated",
121    "uuid": "5e6b411c-37f4-4e09-b2e7-ae5947047768"
122}