IGVFFI0060PNZQ

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI0060PNZQ/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0060PNZQ",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp9_atac_10x2_NGS2_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    "content_md5sum": "ea62d79cc42d6778be19c71857013e0d",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-07-23T22:08:27.050733+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS2108XESQ/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS2108XESQ",
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": "/multiplexed-samples/IGVFSM2512OHNK/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM2512OHNK",
49                "classifications": [
50                    "differentiated cell specimen",
51                    "multiplexed sample"
52                ],
53                "disease_terms": [],
54                "modifications": [],
55                "sample_terms": [
56                    {
57                        "@id": "/sample-terms/CL_0000236/",
58                        "status": "released",
59                        "term_name": "B cell"
60                    }
61                ],
62                "status": "released",
63                "summary": "multiplexed sample: Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 1 day; Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 5 days; ... and 5 more samples",
64                "taxa": "Homo sapiens",
65                "treatments": []
66            }
67        ],
68        "status": "released",
69        "summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
70    },
71    "file_size": 2716791223,
72    "flowcell_id": "223JGVLT3",
73    "gene_list_for": [],
74    "href": "/sequence-files/IGVFFI0060PNZQ/@@download/IGVFFI0060PNZQ.fastq.gz",
75    "illumina_read_type": "I1",
76    "input_file_for": [
77        "/tabular-files/IGVFFI4907GYFZ/"
78    ],
79    "integrated_in": [],
80    "lab": {
81        "@id": "/labs/ansuman-satpathy/",
82        "title": "Ansuman Satpathy, Stanford"
83    },
84    "lane": 6,
85    "loci_list_for": [],
86    "maximum_read_length": 8,
87    "md5sum": "7d34c97aba30c07293a50e301f0ba6fd",
88    "mean_read_length": 8,
89    "minimum_read_length": 8,
90    "quality_metrics": [],
91    "read_count": 411263055,
92    "release_timestamp": "2025-03-22T00:38:23.438902+00:00",
93    "s3_uri": "s3://igvf-restricted-files/2024/07/23/17dbb068-1333-4f65-96ff-e01defe8610c/IGVFFI0060PNZQ.fastq.gz",
94    "schema_version": "15",
95    "seqspecs": [
96        "/configuration-files/IGVFFI2789XFWJ/"
97    ],
98    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
99    "sequencing_platform": {
100        "@id": "/platform-terms/EFO_0022840/",
101        "status": "released",
102        "term_name": "Illumina NovaSeq X"
103    },
104    "sequencing_run": 1,
105    "status": "released",
106    "submitted_by": {
107        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
108        "title": "Christopher Mcginnis"
109    },
110    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/230707_IGVF9_McGinnis/ATAC/FASTQ/ATAC_2CMAS_IGVF9_A_S22_L006_I1_001.fastq.gz",
111    "summary": "I1 reads from sequencing run 1",
112    "upload_status": "validated",
113    "uuid": "17dbb068-1333-4f65-96ff-e01defe8610c"
114}