IGVFFI0543TXQY

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI0543TXQY/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0543TXQY",
10    "assay_titles": [
11        "Parse SPLiT-seq"
12    ],
13    "audit": {},
14    "award": {
15        "@id": "/awards/HG012077/",
16        "component": "mapping"
17    },
18    "content_md5sum": "21ee1cc6e2074772c36726f0ae1c8f97",
19    "content_type": "reads",
20    "controlled_access": false,
21    "creation_timestamp": "2023-10-15T03:37:44.699020+00:00",
22    "externally_hosted": false,
23    "file_format": "fastq",
24    "file_set": {
25        "@id": "/measurement-sets/IGVFDS8210SMYP/",
26        "@type": [
27            "MeasurementSet",
28            "FileSet",
29            "Item"
30        ],
31        "accession": "IGVFDS8210SMYP",
32        "assay_term": {
33            "@id": "/assay-terms/OBI_0003109/",
34            "term_name": "single-nucleus RNA sequencing assay"
35        },
36        "file_set_type": "experimental data",
37        "samples": [
38            {
39                "@id": "/multiplexed-samples/IGVFSM4512WXKU/",
40                "@type": [
41                    "MultiplexedSample",
42                    "Sample",
43                    "Item"
44                ],
45                "accession": "IGVFSM4512WXKU",
46                "classifications": [
47                    "tissue",
48                    "multiplexed sample"
49                ],
50                "disease_terms": [],
51                "modifications": [],
52                "sample_terms": [
53                    {
54                        "@id": "/sample-terms/NTR_0000646/",
55                        "status": "released",
56                        "term_name": "left cerebral cortex"
57                    },
58                    {
59                        "@id": "/sample-terms/NTR_0000647/",
60                        "status": "released",
61                        "term_name": "right cerebral cortex"
62                    },
63                    {
64                        "@id": "/sample-terms/NTR_0000750/",
65                        "status": "released",
66                        "term_name": "left hippocampal formation"
67                    },
68                    {
69                        "@id": "/sample-terms/NTR_0000751/",
70                        "status": "released",
71                        "term_name": "right hippocampal formation"
72                    },
73                    {
74                        "@id": "/sample-terms/UBERON_0001388/",
75                        "status": "released",
76                        "term_name": "gastrocnemius"
77                    }
78                ],
79                "status": "released",
80                "summary": "multiplexed sample: Mus musculus NZO/H1LtJ (female, 69 days) gastrocnemius tissue; Mus musculus NZO/H1LtJ (male, 69 days) left hippocampal formation tissue; ... and 190 more samples",
81                "taxa": "Mus musculus",
82                "treatments": []
83            }
84        ],
85        "status": "released",
86        "summary": "Parse SPLiT-seq"
87    },
88    "file_size": 11766364467,
89    "flowcell_id": "H7KYTDSX7",
90    "gene_list_for": [],
91    "href": "/sequence-files/IGVFFI0543TXQY/@@download/IGVFFI0543TXQY.fastq.gz",
92    "illumina_read_type": "R1",
93    "input_file_for": [
94        "/matrix-files/IGVFFI2396PREL/"
95    ],
96    "integrated_in": [],
97    "lab": {
98        "@id": "/labs/ali-mortazavi/",
99        "title": "Ali Mortazavi, UCI"
100    },
101    "lane": 2,
102    "loci_list_for": [],
103    "maximum_read_length": 140,
104    "md5sum": "07f4e7939604c680e2128c30fbab9b92",
105    "mean_read_length": 140,
106    "minimum_read_length": 140,
107    "quality_metrics": [],
108    "read_count": 166288738,
109    "read_names": [
110        "Read 1"
111    ],
112    "release_timestamp": "2025-04-19T01:38:04.918541+00:00",
113    "s3_uri": "s3://igvf-files/2023/10/15/c55e7eb7-3148-45a2-b624-958bb28bd8b0/IGVFFI0543TXQY.fastq.gz",
114    "schema_version": "15",
115    "seqspecs": [
116        "/configuration-files/IGVFFI5536YQAJ/"
117    ],
118    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
119    "sequencing_platform": {
120        "@id": "/platform-terms/EFO_0008637/",
121        "status": "released",
122        "term_name": "Illumina NovaSeq 6000"
123    },
124    "sequencing_run": 6,
125    "status": "released",
126    "submitted_by": {
127        "@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
128        "title": "Diane Trout"
129    },
130    "submitted_file_name": "igvf_011/nova2/igvf_011_B07_D_nova_N2_L002_R1.fastq.gz",
131    "summary": "R1 reads from sequencing run 6",
132    "upload_status": "validated",
133    "uuid": "c55e7eb7-3148-45a2-b624-958bb28bd8b0"
134}