IGVFFI5511LYXX

preview
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI5511LYXX/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI5511LYXX",
10    "aliases": [
11        "igvf:corces_sequenceFile_ATAC_X004_G2_P003_L004_R3"
12    ],
13    "assay_titles": [
14        "10x multiome"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012076/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v20",
22    "content_md5sum": "cd079c6b40e939fac1ce3f915309530d",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-03-20T00:39:17.284899+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS5462PWXH/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS5462PWXH",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0002762/",
38            "term_name": "single-nucleus ATAC-seq"
39        },
40        "file_set_type": "experimental data",
41        "samples": [
42            {
43                "@id": "/tissues/IGVFSM6036OELU/",
44                "@type": [
45                    "Tissue",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM6036OELU",
51                "classifications": [
52                    "tissue"
53                ],
54                "sample_terms": [
55                    {
56                        "@id": "/sample-terms/UBERON_0002740/",
57                        "status": "preview",
58                        "term_name": "posterior cingulate gyrus"
59                    }
60                ],
61                "status": "preview",
62                "summary": "Homo sapiens (male, 81 years) posterior cingulate gyrus tissue",
63                "taxa": "Homo sapiens"
64            }
65        ],
66        "status": "preview",
67        "summary": "single-nucleus ATAC-seq (10x multiome)"
68    },
69    "file_size": 6976530869,
70    "flowcell_id": "H5TH7DSX5",
71    "gene_list_for": [],
72    "href": "/sequence-files/IGVFFI5511LYXX/@@download/IGVFFI5511LYXX.fastq.gz",
73    "illumina_read_type": "R3",
74    "input_file_for": [],
75    "integrated_in": [],
76    "lab": {
77        "@id": "/labs/ryan-corces/",
78        "title": "Ryan Corces, Gladstone Institute UCSF"
79    },
80    "lane": 4,
81    "loci_list_for": [],
82    "maximum_read_length": 50,
83    "md5sum": "c3bf5b0d28dc9cb4c846c84d68057f54",
84    "mean_read_length": 50,
85    "minimum_read_length": 50,
86    "quality_metrics": [],
87    "read_count": 212901230,
88    "read_names": [
89        "Read 2"
90    ],
91    "s3_uri": "s3://igvf-files/2025/03/20/25db1119-54e3-488a-8e3d-c066ac2634d1/IGVFFI5511LYXX.fastq.gz",
92    "schema_version": "15",
93    "seqspecs": [],
94    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
95    "sequencing_platform": {
96        "@id": "/platform-terms/EFO_0008637/",
97        "status": "released",
98        "term_name": "Illumina NovaSeq 6000"
99    },
100    "sequencing_run": 1,
101    "status": "preview",
102    "submitted_by": {
103        "@id": "/users/c13db3ca-f844-4a69-9056-5fbc4a100f36/",
104        "title": "Ryan Corces"
105    },
106    "submitted_file_name": "Multiome_ATAC_nd_20-57_CING_X004_S02_L002_B1_T1_P003_S16_L004_R3_001.fastq.gz",
107    "summary": "R3 reads from sequencing run 1",
108    "upload_status": "validated",
109    "uuid": "25db1119-54e3-488a-8e3d-c066ac2634d1"
110}