IGVFFI4562ZCKO

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI4562ZCKO/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI4562ZCKO",
10    "aliases": [
11        "bradley-bernstein:SS-LS_2009_R1",
12        "bradley-bernstein:SS-LS_247_R1",
13        "buenrostro-bernstein:SS-LS_2009_R1",
14        "buenrostro-bernstein:SS-LS_247_R1"
15    ],
16    "assay_titles": [
17        "SHARE-seq"
18    ],
19    "audit": {
20        "INTERNAL_ACTION": [
21            {
22                "category": "mismatched status",
23                "detail": "Released sequence file [IGVFFI4562ZCKO](/sequence-files/IGVFFI4562ZCKO/) has in progress subobject platform term [EFO_0008637](/platform-terms/EFO_0008637/).",
24                "level": 30,
25                "level_name": "INTERNAL_ACTION",
26                "name": "audit_item_status",
27                "path": "/sequence-files/IGVFFI4562ZCKO/"
28            }
29        ]
30    },
31    "award": {
32        "@id": "/awards/HG011986/",
33        "component": "mapping"
34    },
35    "content_md5sum": "050bffdc19013637ece45915b9b50324",
36    "content_type": "reads",
37    "controlled_access": false,
38    "creation_timestamp": "2023-09-05T19:27:58.347692+00:00",
39    "derived_manually": false,
40    "externally_hosted": false,
41    "file_format": "fastq",
42    "file_set": {
43        "@id": "/measurement-sets/IGVFDS5192VPKQ/",
44        "@type": [
45            "MeasurementSet",
46            "FileSet",
47            "Item"
48        ],
49        "accession": "IGVFDS5192VPKQ",
50        "assay_term": {
51            "@id": "/assay-terms/OBI_0002631/",
52            "term_name": "single-cell RNA sequencing assay"
53        },
54        "data_use_limitation_summaries": [
55            "no certificate"
56        ],
57        "file_set_type": "experimental data",
58        "samples": [
59            {
60                "@id": "/tissues/IGVFSM3932SXVT/",
61                "@type": [
62                    "Tissue",
63                    "Biosample",
64                    "Sample",
65                    "Item"
66                ],
67                "accession": "IGVFSM3932SXVT",
68                "classifications": [
69                    "tissue"
70                ],
71                "sample_terms": [
72                    {
73                        "@id": "/sample-terms/UBERON_0000955/",
74                        "status": "released",
75                        "term_name": "brain"
76                    }
77                ],
78                "status": "released",
79                "summary": "Mus musculus C57BL/6 (female) brain tissue (cellular sub pool: SS-PKR 129)",
80                "taxa": "Mus musculus"
81            }
82        ],
83        "status": "released",
84        "summary": "single-cell RNA sequencing assay (SHARE-seq)"
85    },
86    "file_size": 563853112,
87    "gene_list_for": [],
88    "href": "/sequence-files/IGVFFI4562ZCKO/@@download/IGVFFI4562ZCKO.fastq.gz",
89    "illumina_read_type": "R1",
90    "input_file_for": [],
91    "integrated_in": [],
92    "lab": {
93        "@id": "/labs/jason-buenrostro/",
94        "title": "Jason Buenrostro, Broad"
95    },
96    "loci_list_for": [],
97    "maximum_read_length": 50,
98    "md5sum": "86a68d3954966763979091de2dfe1a0d",
99    "mean_read_length": 50,
100    "minimum_read_length": 50,
101    "quality_metrics": [],
102    "read_count": 21211111,
103    "read_names": [
104        "Read 1"
105    ],
106    "release_timestamp": "2025-03-28T21:22:33.899776+00:00",
107    "schema_version": "16",
108    "seqspecs": [
109        "/configuration-files/IGVFFI0896MCPD/"
110    ],
111    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
112    "sequencing_platform": {
113        "@id": "/platform-terms/EFO_0008637/",
114        "status": "in progress",
115        "term_name": "Illumina NovaSeq 6000"
116    },
117    "sequencing_run": 247,
118    "status": "released",
119    "submitted_by": {
120        "@id": "/users/c0838247-5022-46cf-a8fa-426e73bf4c94/",
121        "title": "Siddarth Wekhande"
122    },
123    "submitted_file_name": "gs://broad-epi-ss-lane-subsets/SS-CoPA-134_L2_SS-PKR-129_2022-APRIL-R1-PLATE2-ENTIRE-PLATE_R1.fastq.gz",
124    "summary": "R1 reads from sequencing run 247",
125    "upload_status": "validated",
126    "uuid": "a4f83a0c-634c-4857-b60d-2bcb17371529"
127}