IGVFFI8520LBNH

preview
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI8520LBNH/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI8520LBNH",
10    "aliases": [
11        "igvf:corces_sequenceFile_RNA_X008_G1_P006_L002_R1"
12    ],
13    "assay_titles": [
14        "10x multiome"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012076/",
19        "component": "mapping"
20    },
21    "checkfiles_version": "v20",
22    "content_md5sum": "8a8f1ff5e4a97e6460fcf2fc1f57a49d",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-03-20T00:43:23.391598+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS9811IRQC/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS9811IRQC",
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": "/tissues/IGVFSM5610ZMIM/",
44                "@type": [
45                    "Tissue",
46                    "Biosample",
47                    "Sample",
48                    "Item"
49                ],
50                "accession": "IGVFSM5610ZMIM",
51                "classifications": [
52                    "tissue"
53                ],
54                "disease_terms": [
55                    {
56                        "@id": "/phenotype-terms/DOID_14330/",
57                        "@type": [
58                            "PhenotypeTerm",
59                            "OntologyTerm",
60                            "Item"
61                        ],
62                        "status": "in progress",
63                        "summary": "Parkinson's disease",
64                        "term_name": "Parkinson's disease"
65                    }
66                ],
67                "sample_terms": [
68                    {
69                        "@id": "/sample-terms/UBERON_0002038/",
70                        "status": "preview",
71                        "term_name": "substantia nigra"
72                    }
73                ],
74                "status": "preview",
75                "summary": "Homo sapiens (male, 78 years) substantia nigra tissue associated with Parkinson's disease",
76                "taxa": "Homo sapiens"
77            }
78        ],
79        "status": "preview",
80        "summary": "single-nucleus RNA sequencing assay (10x multiome)"
81    },
82    "file_size": 8177204553,
83    "flowcell_id": "H5THNDSX5",
84    "gene_list_for": [],
85    "href": "/sequence-files/IGVFFI8520LBNH/@@download/IGVFFI8520LBNH.fastq.gz",
86    "illumina_read_type": "R1",
87    "input_file_for": [],
88    "integrated_in": [],
89    "lab": {
90        "@id": "/labs/ryan-corces/",
91        "title": "Ryan Corces, Gladstone Institute UCSF"
92    },
93    "lane": 2,
94    "loci_list_for": [],
95    "maximum_read_length": 30,
96    "md5sum": "3327adf62c6884c2d2f958e367b26947",
97    "mean_read_length": 30,
98    "minimum_read_length": 30,
99    "quality_metrics": [],
100    "read_count": 370032187,
101    "read_names": [
102        "Read 1"
103    ],
104    "s3_uri": "s3://igvf-files/2025/03/20/fc18da57-5311-41f6-8026-73c7628fcbe3/IGVFFI8520LBNH.fastq.gz",
105    "schema_version": "15",
106    "seqspecs": [],
107    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
108    "sequencing_platform": {
109        "@id": "/platform-terms/EFO_0008637/",
110        "status": "released",
111        "term_name": "Illumina NovaSeq 6000"
112    },
113    "sequencing_run": 1,
114    "status": "preview",
115    "submitted_by": {
116        "@id": "/users/c13db3ca-f844-4a69-9056-5fbc4a100f36/",
117        "title": "Ryan Corces"
118    },
119    "submitted_file_name": "Multiome_RNA_PD_03-25_SN_X008_L001_B1_T1_P006_S19_L002_R1_001.fastq.gz",
120    "summary": "R1 reads from sequencing run 1",
121    "upload_status": "validated",
122    "uuid": "fc18da57-5311-41f6-8026-73c7628fcbe3"
123}