IGVFFI6623FYZW

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI6623FYZW/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6623FYZW",
10    "aliases": [
11        "ansuman-satpathy:igvf_exp13_rna_10x2_NGS3_r2"
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": "541b758235c35d798e7c72b2baa7e6c5",
22    "content_type": "reads",
23    "controlled_access": true,
24    "creation_timestamp": "2024-07-23T21:33:37.999645+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS8398CKNT/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS8398CKNT",
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/IGVFSM7106DAZZ/",
43                "@type": [
44                    "MultiplexedSample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM7106DAZZ",
49                "classifications": [
50                    "tissue",
51                    "multiplexed sample"
52                ],
53                "disease_terms": [
54                    {
55                        "@id": "/phenotype-terms/MONDO_0005010/",
56                        "@type": [
57                            "PhenotypeTerm",
58                            "OntologyTerm",
59                            "Item"
60                        ],
61                        "status": "released",
62                        "summary": "coronary artery disorder",
63                        "term_name": "coronary artery disorder"
64                    }
65                ],
66                "modifications": [],
67                "sample_terms": [
68                    {
69                        "@id": "/sample-terms/UBERON_0001626/",
70                        "status": "released",
71                        "term_name": "left coronary artery"
72                    }
73                ],
74                "status": "released",
75                "summary": "multiplexed sample: Homo sapiens (female, 48 years) left coronary artery tissue associated with coronary artery disorder; Homo sapiens (female, 73 years) left coronary artery tissue associated with coronary artery disorder; ... and 2 more samples",
76                "taxa": "Homo sapiens",
77                "treatments": []
78            }
79        ],
80        "status": "released",
81        "summary": "single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
82    },
83    "file_size": 14716782065,
84    "flowcell_id": "22HHHWLT3",
85    "gene_list_for": [],
86    "href": "/sequence-files/IGVFFI6623FYZW/@@download/IGVFFI6623FYZW.fastq.gz",
87    "illumina_read_type": "R2",
88    "input_file_for": [
89        "/matrix-files/IGVFFI1568KXNK/"
90    ],
91    "integrated_in": [],
92    "lab": {
93        "@id": "/labs/ansuman-satpathy/",
94        "title": "Ansuman Satpathy, Stanford"
95    },
96    "lane": 3,
97    "loci_list_for": [],
98    "maximum_read_length": 90,
99    "md5sum": "3d154d56d298088152f37fbd8154bb63",
100    "mean_read_length": 90,
101    "minimum_read_length": 90,
102    "quality_metrics": [],
103    "read_count": 361879583,
104    "read_names": [
105        "Read 2"
106    ],
107    "release_timestamp": "2025-03-22T00:40:12.710873+00:00",
108    "s3_uri": "s3://igvf-restricted-files/2024/07/23/ffe32c39-d250-4f0b-ab9e-4b82f1b7e07e/IGVFFI6623FYZW.fastq.gz",
109    "schema_version": "15",
110    "seqspecs": [
111        "/configuration-files/IGVFFI3096BEXO/"
112    ],
113    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
114    "sequencing_platform": {
115        "@id": "/platform-terms/EFO_0022840/",
116        "status": "released",
117        "term_name": "Illumina NovaSeq X"
118    },
119    "sequencing_run": 1,
120    "status": "released",
121    "submitted_by": {
122        "@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
123        "title": "Christopher Mcginnis"
124    },
125    "submitted_file_name": "/oak/stanford/projects/igvf/Projects/240425_IGVF13_McGinnis/GEX/FASTQ/igvf13_s2_rna_S2_L003_R2_001.fastq.gz",
126    "summary": "R2 reads from sequencing run 1",
127    "upload_status": "validated",
128    "uuid": "ffe32c39-d250-4f0b-ab9e-4b82f1b7e07e"
129}