IGVFFI4354UZDA

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI4354UZDA/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI4354UZDA",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_4313_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": "c0e0d177a6909d1ca8b4f7e4afaddeb0",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2024-08-20T15:28:00.657094+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS2040MXVF/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS2040MXVF",
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/IGVFSM3191EHDK/",
48                "@type": [
49                    "InVitroSystem",
50                    "Biosample",
51                    "Sample",
52                    "Item"
53                ],
54                "accession": "IGVFSM3191EHDK",
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 endodermal cell for 2 days (cellular sub pool: SS-PKR 168)",
68                "targeted_sample_term": {
69                    "@id": "/sample-terms/CL_0000223/",
70                    "status": "released",
71                    "term_name": "endodermal cell"
72                },
73                "taxa": "Homo sapiens"
74            }
75        ],
76        "status": "released",
77        "summary": "single-cell ATAC-seq (SHARE-seq)"
78    },
79    "file_size": 3074375147,
80    "flowcell_id": "H75F7DSX5",
81    "gene_list_for": [],
82    "href": "/sequence-files/IGVFFI4354UZDA/@@download/IGVFFI4354UZDA.fastq.gz",
83    "illumina_read_type": "R2",
84    "input_file_for": [
85        "/alignment-files/IGVFFI0816DLBN/",
86        "/tabular-files/IGVFFI6292WOUT/"
87    ],
88    "integrated_in": [],
89    "lab": {
90        "@id": "/labs/jason-buenrostro/",
91        "title": "Jason Buenrostro, Broad"
92    },
93    "loci_list_for": [],
94    "maximum_read_length": 50,
95    "md5sum": "13cfdfbfcc94ed1bf70949ae270a2aa3",
96    "mean_read_length": 50,
97    "minimum_read_length": 50,
98    "quality_metrics": [],
99    "read_count": 106838365,
100    "read_names": [
101        "Read 2"
102    ],
103    "release_timestamp": "2025-04-22T04:14:33.373067+00:00",
104    "s3_uri": "s3://igvf-restricted-files/2024/08/20/2e6b70b6-4ea7-4722-82ad-51b6b555f595/IGVFFI4354UZDA.fastq.gz",
105    "schema_version": "15",
106    "seqspecs": [
107        "/configuration-files/IGVFFI4378DGLH/"
108    ],
109    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
110    "sequencing_platform": {
111        "@id": "/platform-terms/EFO_0008637/",
112        "status": "released",
113        "term_name": "Illumina NovaSeq 6000"
114    },
115    "sequencing_run": 4313,
116    "status": "released",
117    "submitted_by": {
118        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
119        "title": "Siddarth Wekhande"
120    },
121    "submitted_file_name": "gs://fc-bde04173-e601-40f3-84b5-6c7f0d9be441/submissions/final-outputs/07e69bd4-7fc9-44f3-915e-796979c95b5f/wf_create_fastq_barcode/f0607ce0-d3c8-42ed-b4d2-8be9e6ceda00/call-create_fastq_barcode/shard-0/SS-CoPA-566_L3_SS-PKR-168_2022-APRIL-R1-PLATE2-1st-THIRD_R2.R2.fastq.gz",
122    "summary": "R2 reads from sequencing run 4313",
123    "upload_status": "validated",
124    "uuid": "2e6b70b6-4ea7-4722-82ad-51b6b555f595"
125}