IGVFFI0430XHJG

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI0430XHJG/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0430XHJG",
10    "aliases": [
11        "ansuman-satpathy:igvf_mouse_bridge_775_atac_r3"
12    ],
13    "assay_titles": [
14        "10x multiome"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012076/",
19        "component": "mapping"
20    },
21    "content_md5sum": "040c165dd25081b2a0c2e25cdc9f7748",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2025-01-15T23:53:06.671166+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS2289SZHO/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS2289SZHO",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0002762/",
37            "term_name": "single-nucleus ATAC-seq"
38        },
39        "file_set_type": "experimental data",
40        "samples": [
41            {
42                "@id": "/tissues/IGVFSM5654SLCG/",
43                "@type": [
44                    "Tissue",
45                    "Biosample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM5654SLCG",
50                "classifications": [
51                    "tissue"
52                ],
53                "sample_terms": [
54                    {
55                        "@id": "/sample-terms/NTR_0000646/",
56                        "status": "released",
57                        "term_name": "left cerebral cortex"
58                    }
59                ],
60                "status": "released",
61                "summary": "Mus musculus CAST/EiJ (male, 10 weeks) left cerebral cortex tissue",
62                "taxa": "Mus musculus"
63            }
64        ],
65        "status": "released",
66        "summary": "single-nucleus ATAC-seq (10x multiome)"
67    },
68    "file_size": 19915656345,
69    "flowcell_id": "22VLCLLT3",
70    "gene_list_for": [],
71    "href": "/sequence-files/IGVFFI0430XHJG/@@download/IGVFFI0430XHJG.fastq.gz",
72    "illumina_read_type": "R3",
73    "input_file_for": [],
74    "integrated_in": [],
75    "lab": {
76        "@id": "/labs/ansuman-satpathy/",
77        "title": "Ansuman Satpathy, Stanford"
78    },
79    "lane": 2,
80    "loci_list_for": [],
81    "maximum_read_length": 50,
82    "md5sum": "bc92be4c5f8cdfc81bcb077a760e85cb",
83    "mean_read_length": 50,
84    "minimum_read_length": 50,
85    "quality_metrics": [],
86    "read_count": 689510467,
87    "read_names": [
88        "Read 2"
89    ],
90    "release_timestamp": "2025-03-07T01:19:08.371035+00:00",
91    "s3_uri": "s3://igvf-files/2025/01/15/27315877-c771-4537-9450-bb6e4cb15542/IGVFFI0430XHJG.fastq.gz",
92    "schema_version": "15",
93    "seqspecs": [
94        "/configuration-files/IGVFFI6450AURM/"
95    ],
96    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
97    "sequencing_platform": {
98        "@id": "/platform-terms/EFO_0022840/",
99        "status": "released",
100        "term_name": "Illumina NovaSeq X"
101    },
102    "sequencing_run": 1,
103    "status": "released",
104    "submitted_by": {
105        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
106        "title": "Christopher Mcginnis"
107    },
108    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/bridge_new/IGVF_ATAC_775_CASTJ_10M_21_S3_L002_R3_001.fastq.gz",
109    "summary": "R3 reads from sequencing run 1",
110    "upload_status": "validated",
111    "uuid": "27315877-c771-4537-9450-bb6e4cb15542"
112}