IGVFFI9556KZDQ

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI9556KZDQ/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9556KZDQ",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp16_atac_10x5_NGS4_i1"
12    ],
13    "assay_titles": [
14        "10x multiome with MULTI-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012076/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v14",
22    "content_md5sum": "c20ea79765cb059bae942d47de7fdfbd",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2025-02-03T22:58:51.313086+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS0008XKIZ/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS0008XKIZ",
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": "/multiplexed-samples/IGVFSM1943HMCZ/",
44                "@type": [
45                    "MultiplexedSample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM1943HMCZ",
50                "classifications": [
51                    "differentiated cell specimen",
52                    "multiplexed sample"
53                ],
54                "disease_terms": [],
55                "modifications": [],
56                "sample_terms": [
57                    {
58                        "@id": "/sample-terms/EFO_0004905/",
59                        "status": "released",
60                        "term_name": "induced pluripotent stem cell"
61                    }
62                ],
63                "status": "released",
64                "summary": "multiplexed sample: Homo sapiens (mixed sex) induced pluripotent stem differentiated cell specimen induced to islet of Langerhans for 11 days; Homo sapiens (mixed sex) induced pluripotent stem differentiated cell specimen induced to islet of Langerhans for 3 days; ... and 6 more samples",
65                "taxa": "Homo sapiens",
66                "treatments": []
67            }
68        ],
69        "status": "released",
70        "summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
71    },
72    "file_size": 1555868926,
73    "flowcell_id": "22NC7YLT3",
74    "gene_list_for": [],
75    "href": "/sequence-files/IGVFFI9556KZDQ/@@download/IGVFFI9556KZDQ.fastq.gz",
76    "illumina_read_type": "I1",
77    "input_file_for": [
78        "/tabular-files/IGVFFI2494BZRQ/"
79    ],
80    "integrated_in": [],
81    "lab": {
82        "@id": "/labs/ansuman-satpathy/",
83        "title": "Ansuman Satpathy, Stanford"
84    },
85    "lane": 8,
86    "loci_list_for": [],
87    "maximum_read_length": 8,
88    "md5sum": "534a0e6599e966bd403aa1891c47dbfd",
89    "mean_read_length": 8,
90    "minimum_read_length": 8,
91    "quality_metrics": [],
92    "read_count": 222409684,
93    "release_timestamp": "2025-03-22T00:40:39.110947+00:00",
94    "s3_uri": "s3://igvf-restricted-files/2025/02/03/3f7f087d-09e4-40d1-94d9-fb4877588fd6/IGVFFI9556KZDQ.fastq.gz",
95    "schema_version": "15",
96    "seqspecs": [
97        "/configuration-files/IGVFFI1500JTXU/"
98    ],
99    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
100    "sequencing_platform": {
101        "@id": "/platform-terms/EFO_0022840/",
102        "status": "released",
103        "term_name": "Illumina NovaSeq X"
104    },
105    "sequencing_run": 1,
106    "status": "released",
107    "submitted_by": {
108        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
109        "title": "Christopher Mcginnis"
110    },
111    "submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/igvf16/ATAC/CMAS18_ATAC5_S62_L008_I1_001.fastq.gz",
112    "summary": "I1 reads from sequencing run 1",
113    "upload_status": "validated",
114    "uuid": "3f7f087d-09e4-40d1-94d9-fb4877588fd6"
115}