IGVFFI5998NPTX

preview
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI5998NPTX/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI5998NPTX",
10    "aliases": [
11        "jimmie-ye:XX8-SC3_snRNA_S1_R2"
12    ],
13    "assay_titles": [
14        "10x multiome"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012076/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v17",
22    "content_md5sum": "cf3154786c9ecefd6a4eccc106a845ac",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2025-03-11T17:28:37.513372+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS4076MDBL/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS4076MDBL",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0003109/",
38            "term_name": "single-nucleus RNA sequencing assay"
39        },
40        "file_set_type": "experimental data",
41        "samples": [
42            {
43                "@id": "/multiplexed-samples/IGVFSM6182MOLI/",
44                "@type": [
45                    "MultiplexedSample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM6182MOLI",
50                "classifications": [
51                    "primary cell",
52                    "multiplexed sample"
53                ],
54                "disease_terms": [],
55                "modifications": [],
56                "sample_terms": [
57                    {
58                        "@id": "/sample-terms/CL_2000001/",
59                        "status": "released",
60                        "term_name": "peripheral blood mononuclear cell"
61                    }
62                ],
63                "status": "preview",
64                "summary": "multiplexed sample: Homo sapiens (male, 26.0 years) peripheral blood mononuclear cell; Homo sapiens (male, 26.0 years) peripheral blood mononuclear cell; ... and 17 more samples",
65                "taxa": "Homo sapiens",
66                "treatments": []
67            }
68        ],
69        "status": "preview",
70        "summary": "single-nucleus RNA sequencing assay (10x multiome)"
71    },
72    "file_size": 8461216141,
73    "gene_list_for": [],
74    "href": "/sequence-files/IGVFFI5998NPTX/@@download/IGVFFI5998NPTX.fastq.gz",
75    "illumina_read_type": "R2",
76    "input_file_for": [],
77    "integrated_in": [],
78    "lab": {
79        "@id": "/labs/jimmie-ye/",
80        "title": "Jimmie Ye, UCSF"
81    },
82    "loci_list_for": [],
83    "maximum_read_length": 90,
84    "md5sum": "dbb8817884a4dd6afaddc32ab2ed283b",
85    "mean_read_length": 90,
86    "minimum_read_length": 90,
87    "quality_metrics": [],
88    "read_count": 181430183,
89    "read_names": [
90        "Read 2"
91    ],
92    "s3_uri": "s3://igvf-restricted-files/2025/03/11/6e68e2df-d38e-4a1c-ae41-ec945bb78903/IGVFFI5998NPTX.fastq.gz",
93    "schema_version": "15",
94    "seqspecs": [
95        "/configuration-files/IGVFFI4461HGLR/"
96    ],
97    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
98    "sequencing_platform": {
99        "@id": "/platform-terms/EFO_0008637/",
100        "status": "released",
101        "term_name": "Illumina NovaSeq 6000"
102    },
103    "sequencing_run": 558,
104    "status": "preview",
105    "submitted_by": {
106        "@id": "/users/6df823a5-62f2-4562-94ba-e9285afcfcf4/",
107        "title": "Marcus Alvarez"
108    },
109    "submitted_file_name": "production_data/xhlt1/data/single_cell_GEX/raw/XHLT1-POOL-XX8-SC3/AH2YMLDSX3_ICJY03/XHLT1-POOL-XX8-SC3-GEX_S15_L002_R2_001.fastq.gz",
110    "summary": "R2 reads from sequencing run 558",
111    "upload_status": "validated",
112    "uuid": "6e68e2df-d38e-4a1c-ae41-ec945bb78903"
113}