IGVFFI5187ELPT

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI5187ELPT/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI5187ELPT",
10    "aliases": [
11        "chongyuan-luo:ys3a_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": "95ff83a9a4ecf33c7ad0407337dbde93",
23    "content_type": "reads",
24    "controlled_access": false,
25    "creation_timestamp": "2025-02-04T21:51:25.493957+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS1459GLSU/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS1459GLSU",
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/IGVFSM4163HHQB/",
44                "@type": [
45                    "MultiplexedSample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM4163HHQB",
50                "classifications": [
51                    "primary cell",
52                    "reprogrammed cell specimen",
53                    "multiplexed sample"
54                ],
55                "disease_terms": [],
56                "modifications": [],
57                "sample_terms": [
58                    {
59                        "@id": "/sample-terms/CL_0000057/",
60                        "status": "released",
61                        "term_name": "fibroblast"
62                    }
63                ],
64                "status": "released",
65                "summary": "multiplexed sample: Homo sapiens fibroblast reprogrammed cell specimen induced to induced pluripotent stem cell for 3 days; Homo sapiens fibroblast reprogrammed cell specimen induced to induced pluripotent stem cell for 5 days; ... and 2 more samples",
66                "taxa": "Homo sapiens",
67                "treatments": []
68            }
69        ],
70        "status": "released",
71        "summary": "single-nucleus ATAC-seq (10x multiome)"
72    },
73    "file_size": 12069598509,
74    "gene_list_for": [],
75    "href": "/sequence-files/IGVFFI5187ELPT/@@download/IGVFFI5187ELPT.fastq.gz",
76    "illumina_read_type": "R3",
77    "input_file_for": [],
78    "integrated_in": [],
79    "lab": {
80        "@id": "/labs/kathrin-plath/",
81        "title": "Kathrin Plath, UCLA"
82    },
83    "lane": 2,
84    "loci_list_for": [],
85    "maximum_read_length": 101,
86    "md5sum": "fed1ddfa3971e93d7ceb207337bbe057",
87    "mean_read_length": 101,
88    "minimum_read_length": 101,
89    "quality_metrics": [],
90    "read_count": 222550746,
91    "read_names": [
92        "Read 2"
93    ],
94    "release_timestamp": "2025-03-27T21:33:08.042038+00:00",
95    "s3_uri": "s3://igvf-files/2025/02/04/c6ef5afd-96f3-4837-9733-32840582eedb/IGVFFI5187ELPT.fastq.gz",
96    "schema_version": "15",
97    "seqspecs": [
98        "/configuration-files/IGVFFI4250OFWO/"
99    ],
100    "sequencing_kit": "NovaSeq 6000 S4 Reagent Kit v1.5",
101    "sequencing_platform": {
102        "@id": "/platform-terms/EFO_0008637/",
103        "status": "released",
104        "term_name": "Illumina NovaSeq 6000"
105    },
106    "sequencing_run": 1,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/ec46dfbd-fc11-419d-81e8-8ba82ffe6375/",
110        "title": "Terence Li"
111    },
112    "submitted_file_name": "/home/ec2-user/igvf/submit/fastq/year2/multiome/atac/IGVF2ATAC_A_S1_L002_R3_001.fastq.gz",
113    "summary": "R3 reads from sequencing run 1",
114    "upload_status": "validated",
115    "uuid": "c6ef5afd-96f3-4837-9733-32840582eedb"
116}