IGVFFI6587CMPL

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI6587CMPL/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6587CMPL",
10    "aliases": [
11        "chongyuan-luo:ys3e_snATAC_L2_R3"
12    ],
13    "assay_titles": [
14        "10x multiome"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012079/",
19        "component": "networks"
20    },
21    "checkfiles_version": "v14",
22    "content_md5sum": "b6406b45e60d76df2505fe72647e76d5",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-02-04T23:07:00.668703+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS2231YIUR/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS2231YIUR",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0002762/",
38            "term_name": "single-nucleus ATAC-seq"
39        },
40        "file_set_type": "experimental data",
41        "samples": [
42            {
43                "@id": "/multiplexed-samples/IGVFSM2167MERL/",
44                "@type": [
45                    "MultiplexedSample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM2167MERL",
50                "classifications": [
51                    "reprogrammed cell specimen",
52                    "multiplexed sample"
53                ],
54                "disease_terms": [],
55                "modifications": [],
56                "sample_terms": [
57                    {
58                        "@id": "/sample-terms/CL_0000057/",
59                        "status": "released",
60                        "term_name": "fibroblast"
61                    }
62                ],
63                "status": "released",
64                "summary": "multiplexed sample: Homo sapiens fibroblast reprogrammed cell specimen induced to induced pluripotent stem cell for 1 day; Homo sapiens fibroblast reprogrammed cell specimen induced to induced pluripotent stem cell for 5 days; ... and 2 more samples",
65                "taxa": "Homo sapiens",
66                "treatments": []
67            }
68        ],
69        "status": "released",
70        "summary": "single-nucleus ATAC-seq (10x multiome)"
71    },
72    "file_size": 15928415686,
73    "gene_list_for": [],
74    "href": "/sequence-files/IGVFFI6587CMPL/@@download/IGVFFI6587CMPL.fastq.gz",
75    "illumina_read_type": "R3",
76    "input_file_for": [],
77    "integrated_in": [],
78    "lab": {
79        "@id": "/labs/kathrin-plath/",
80        "title": "Kathrin Plath, UCLA"
81    },
82    "lane": 2,
83    "loci_list_for": [],
84    "maximum_read_length": 101,
85    "md5sum": "3b7a114bc8a0ca22919b9186d77a72c7",
86    "mean_read_length": 101,
87    "minimum_read_length": 101,
88    "quality_metrics": [],
89    "read_count": 298402057,
90    "read_names": [
91        "Read 2"
92    ],
93    "release_timestamp": "2025-03-27T21:33:16.697005+00:00",
94    "s3_uri": "s3://igvf-files/2025/02/04/1e8b7330-85e7-4d86-87c2-38419ded1799/IGVFFI6587CMPL.fastq.gz",
95    "schema_version": "15",
96    "seqspecs": [
97        "/configuration-files/IGVFFI7139OVSD/"
98    ],
99    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
100    "sequencing_platform": {
101        "@id": "/platform-terms/EFO_0008637/",
102        "status": "released",
103        "term_name": "Illumina NovaSeq 6000"
104    },
105    "sequencing_run": 1,
106    "status": "released",
107    "submitted_by": {
108        "@id": "/users/ec46dfbd-fc11-419d-81e8-8ba82ffe6375/",
109        "title": "Terence Li"
110    },
111    "submitted_file_name": "/home/ec2-user/igvf/submit/fastq/year2/multiome/atac/IGVF2ATAC_E_S5_L002_R3_001.fastq.gz",
112    "summary": "R3 reads from sequencing run 1",
113    "upload_status": "validated",
114    "uuid": "1e8b7330-85e7-4d86-87c2-38419ded1799"
115}