IGVFFI2903VCML

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI2903VCML/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI2903VCML",
10    "aliases": [
11        "buenrostro-bernstein:SS-LS_1076_R1"
12    ],
13    "assay_titles": [
14        "SHARE-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011986/",
19        "component": "mapping"
20    },
21    "content_md5sum": "27ba8959990b8b06aa9cd37e7800a706",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-08-20T15:14:07.257071+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS0506MOGA/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS0506MOGA",
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/IGVFSM1023FJHJ/",
47                "@type": [
48                    "InVitroSystem",
49                    "Biosample",
50                    "Sample",
51                    "Item"
52                ],
53                "accession": "IGVFSM1023FJHJ",
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 4 days (cellular sub pool: SS-PKR 188)",
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": 1171005844,
79    "flowcell_id": "22773CLT3",
80    "gene_list_for": [],
81    "href": "/sequence-files/IGVFFI2903VCML/@@download/IGVFFI2903VCML.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": "03e1d4deb898c540c5e190808822e7bb",
92    "mean_read_length": 150,
93    "minimum_read_length": 150,
94    "quality_metrics": [],
95    "read_count": 21455276,
96    "read_names": [
97        "Read 1"
98    ],
99    "release_timestamp": "2025-04-22T04:08:59.914481+00:00",
100    "s3_uri": "s3://igvf-restricted-files/2024/08/20/d14e2e51-28e9-49cc-af98-49e7ba0b3346/IGVFFI2903VCML.fastq.gz",
101    "schema_version": "15",
102    "seqspecs": [
103        "/configuration-files/IGVFFI1260QUXC/"
104    ],
105    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
106    "sequencing_platform": {
107        "@id": "/platform-terms/EFO_0022840/",
108        "status": "released",
109        "term_name": "Illumina NovaSeq X"
110    },
111    "sequencing_run": 1076,
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-963_L4_SS-PKR-188_2022-APRIL-R1-PLATE2-2nd-THIRD_R1.fastq.gz",
118    "summary": "R1 reads from sequencing run 1076",
119    "upload_status": "validated",
120    "uuid": "d14e2e51-28e9-49cc-af98-49e7ba0b3346"
121}