IGVFFI1836HWZA

preview
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI1836HWZA/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI1836HWZA",
10    "aliases": [
11        "igvf:corces_sequenceFile_RNA_RP033_G5_P080_L008_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": "acae295524f118635a98adae2c363fdf",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-03-21T02:22:39.795375+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS5819VBCX/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS5819VBCX",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0003109/",
38            "term_name": "single-nucleus RNA sequencing assay"
39        },
40        "controlled_access": false,
41        "data_use_limitation_summaries": [
42            "No limitations"
43        ],
44        "file_set_type": "experimental data",
45        "samples": [
46            {
47                "@id": "/multiplexed-samples/IGVFSM2223HMDU/",
48                "@type": [
49                    "MultiplexedSample",
50                    "Sample",
51                    "Item"
52                ],
53                "accession": "IGVFSM2223HMDU",
54                "classifications": [
55                    "tissue",
56                    "multiplexed sample"
57                ],
58                "disease_terms": [
59                    {
60                        "@id": "/phenotype-terms/DOID_14330/",
61                        "@type": [
62                            "PhenotypeTerm",
63                            "OntologyTerm",
64                            "Item"
65                        ],
66                        "status": "in progress",
67                        "summary": "Parkinson's disease",
68                        "term_name": "Parkinson's disease"
69                    },
70                    {
71                        "@id": "/phenotype-terms/DOID_9246/",
72                        "@type": [
73                            "PhenotypeTerm",
74                            "OntologyTerm",
75                            "Item"
76                        ],
77                        "status": "in progress",
78                        "summary": "cerebral amyloid angiopathy",
79                        "term_name": "cerebral amyloid angiopathy"
80                    }
81                ],
82                "modifications": [],
83                "sample_terms": [
84                    {
85                        "@id": "/sample-terms/UBERON_0001874/",
86                        "status": "preview",
87                        "term_name": "putamen"
88                    },
89                    {
90                        "@id": "/sample-terms/UBERON_0002038/",
91                        "status": "preview",
92                        "term_name": "substantia nigra"
93                    },
94                    {
95                        "@id": "/sample-terms/UBERON_0002740/",
96                        "status": "preview",
97                        "term_name": "posterior cingulate gyrus"
98                    }
99                ],
100                "status": "preview",
101                "summary": "multiplexed sample: Homo sapiens (male, 70 years) substantia nigra tissue associated with Parkinson's disease; Homo sapiens (female, 70 years) substantia nigra tissue associated with Parkinson's disease; ... and 6 more samples",
102                "taxa": "Homo sapiens",
103                "treatments": []
104            }
105        ],
106        "status": "preview",
107        "summary": "single-nucleus RNA sequencing assay (10x multiome)"
108    },
109    "file_size": 12988173450,
110    "flowcell_id": "19NHCA4LE",
111    "gene_list_for": [],
112    "href": "/sequence-files/IGVFFI1836HWZA/@@download/IGVFFI1836HWZA.fastq.gz",
113    "illumina_read_type": "R1",
114    "input_file_for": [],
115    "integrated_in": [],
116    "lab": {
117        "@id": "/labs/ryan-corces/",
118        "title": "Ryan Corces, Gladstone Institute UCSF"
119    },
120    "lane": 8,
121    "loci_list_for": [],
122    "maximum_read_length": 151,
123    "md5sum": "3c044607ded66cdc3ec6c45c348b3ee1",
124    "mean_read_length": 151,
125    "minimum_read_length": 151,
126    "quality_metrics": [],
127    "read_count": 143027704,
128    "read_names": [
129        "Read 1"
130    ],
131    "s3_uri": "s3://igvf-files/2025/03/21/0f40fe9e-7b05-49ca-be9a-7ce4676b7c5a/IGVFFI1836HWZA.fastq.gz",
132    "schema_version": "15",
133    "seqspecs": [],
134    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
135    "sequencing_platform": {
136        "@id": "/platform-terms/EFO_0022840/",
137        "status": "released",
138        "term_name": "Illumina NovaSeq X"
139    },
140    "sequencing_run": 1,
141    "status": "preview",
142    "submitted_by": {
143        "@id": "/users/c13db3ca-f844-4a69-9056-5fbc4a100f36/",
144        "title": "Ryan Corces"
145    },
146    "submitted_file_name": "Multiome_RNA_RP033_G5_L005_P080_S57_L008_R1_001.fastq.gz",
147    "summary": "R1 reads from sequencing run 1",
148    "upload_status": "validated",
149    "uuid": "0f40fe9e-7b05-49ca-be9a-7ce4676b7c5a"
150}