IGVFFI5295WLXB

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI5295WLXB/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI5295WLXB",
10    "aliases": [
11        "chongyuan-luo:pgp_snm3c_C38_day0_L2_R1"
12    ],
13    "assay_titles": [
14        "snM3C-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012079/",
19        "component": "networks"
20    },
21    "content_md5sum": "427c1fce10917665715ec38b265e4454",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2024-11-16T21:04:38.730211+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS5562PVFA/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS5562PVFA",
35        "assay_term": {
36            "@id": "/assay-terms/NTR_0000745/",
37            "term_name": "single nucleus methylation and chromatin conformation capture sequencing"
38        },
39        "file_set_type": "experimental data",
40        "samples": [
41            {
42                "@id": "/primary-cells/IGVFSM4462WZBJ/",
43                "@type": [
44                    "PrimaryCell",
45                    "Biosample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM4462WZBJ",
50                "classifications": [
51                    "primary cell"
52                ],
53                "sample_terms": [
54                    {
55                        "@id": "/sample-terms/CL_0000057/",
56                        "status": "released",
57                        "term_name": "fibroblast"
58                    }
59                ],
60                "status": "released",
61                "summary": "Homo sapiens (1 year) fibroblast cell",
62                "taxa": "Homo sapiens"
63            }
64        ],
65        "status": "released",
66        "summary": "snM3C-seq"
67    },
68    "file_size": 2648298911,
69    "gene_list_for": [],
70    "href": "/sequence-files/IGVFFI5295WLXB/@@download/IGVFFI5295WLXB.fastq.gz",
71    "illumina_read_type": "R1",
72    "input_file_for": [],
73    "integrated_in": [],
74    "lab": {
75        "@id": "/labs/chongyuan-luo/",
76        "title": "Chongyuan Luo, UCLA"
77    },
78    "lane": 2,
79    "loci_list_for": [],
80    "maximum_read_length": 151,
81    "md5sum": "bbd57bb7d09968b04f5b1e2c2f62051d",
82    "mean_read_length": 148.67,
83    "minimum_read_length": 35,
84    "quality_metrics": [],
85    "read_count": 37624494,
86    "release_timestamp": "2025-02-11T00:54:16.117086+00:00",
87    "s3_uri": "s3://igvf-files/2024/11/16/684ad3a7-37f1-4ac7-97ca-1348d9d4c137/IGVFFI5295WLXB.fastq.gz",
88    "schema_version": "15",
89    "seqspecs": [],
90    "sequencing_kit": "NovaSeq X Series 10B Reagent Kit",
91    "sequencing_platform": {
92        "@id": "/platform-terms/EFO_0022840/",
93        "status": "released",
94        "term_name": "Illumina NovaSeq X"
95    },
96    "sequencing_run": 1,
97    "status": "released",
98    "submitted_by": {
99        "@id": "/users/ec46dfbd-fc11-419d-81e8-8ba82ffe6375/",
100        "title": "Terence Li"
101    },
102    "submitted_file_name": "/home/ec2-user/igvf/submit/fastq/year2/snm3c/yzcl47/20231005-3C38D0-Pos1-B05_S15_L002_R1_001.fastq.gz",
103    "submitter_comment": "Changed from Novaseq 6000 to Novaseq X on 20250224",
104    "summary": "R1 reads from sequencing run 1",
105    "upload_status": "validated",
106    "uuid": "684ad3a7-37f1-4ac7-97ca-1348d9d4c137"
107}