IGVFFI3472WGIO

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI3472WGIO/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3472WGIO",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp9_rna_10x1_NGS2_i2"
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": "24fb70b919690dcda35c161e44e699a3",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-07-23T21:19:47.190507+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS3634TPOY/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS3634TPOY",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0003109/",
37            "term_name": "single-nucleus RNA sequencing assay"
38        },
39        "file_set_type": "experimental data",
40        "samples": [
41            {
42                "@id": "/multiplexed-samples/IGVFSM9678IFHW/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM9678IFHW",
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 RNA sequencing assay (10x multiome with MULTI-seq)"
70    },
71    "file_size": 1991240156,
72    "flowcell_id": "223JHYLT3",
73    "gene_list_for": [],
74    "href": "/sequence-files/IGVFFI3472WGIO/@@download/IGVFFI3472WGIO.fastq.gz",
75    "illumina_read_type": "I2",
76    "input_file_for": [
77        "/matrix-files/IGVFFI6188HAUP/"
78    ],
79    "integrated_in": [],
80    "lab": {
81        "@id": "/labs/ansuman-satpathy/",
82        "title": "Ansuman Satpathy, Stanford"
83    },
84    "lane": 2,
85    "loci_list_for": [],
86    "maximum_read_length": 10,
87    "md5sum": "294d4d02a3e348309efa15fb0b36ef79",
88    "mean_read_length": 10,
89    "minimum_read_length": 10,
90    "quality_metrics": [],
91    "read_count": 396315824,
92    "release_timestamp": "2025-03-22T00:38:13.438592+00:00",
93    "s3_uri": "s3://igvf-restricted-files/2024/07/23/3663067a-0576-41bd-b13f-9bdfc6ae8598/IGVFFI3472WGIO.fastq.gz",
94    "schema_version": "15",
95    "seqspecs": [
96        "/configuration-files/IGVFFI6838ZGFZ/"
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/GEX/FASTQ/GEX_1_CMAS_IGVF9_R_S7_L002_I2_001.fastq.gz",
111    "summary": "I2 reads from sequencing run 1",
112    "upload_status": "validated",
113    "uuid": "3663067a-0576-41bd-b13f-9bdfc6ae8598"
114}