IGVFFI7400ROID

preview
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI7400ROID/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI7400ROID",
10    "aliases": [
11        "harinder-singh:donor1_Bcell_multiome_ATAC_NGS_day0_2_L002_R3"
12    ],
13    "assay_titles": [
14        "10x multiome"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012041/",
19        "component": "networks"
20    },
21    "checkfiles_version": "v17",
22    "content_md5sum": "593fef62d6676eba2e4da057983a8346",
23    "content_type": "reads",
24    "controlled_access": true,
25    "creation_timestamp": "2025-03-04T22:15:48.011715+00:00",
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS4024LHFB/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS4024LHFB",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0002762/",
38            "term_name": "single-nucleus ATAC-seq"
39        },
40        "controlled_access": true,
41        "data_use_limitation_summaries": [
42            "HMB"
43        ],
44        "file_set_type": "experimental data",
45        "samples": [
46            {
47                "@id": "/in-vitro-systems/IGVFSM8093SHHZ/",
48                "@type": [
49                    "InVitroSystem",
50                    "Biosample",
51                    "Sample",
52                    "Item"
53                ],
54                "accession": "IGVFSM8093SHHZ",
55                "classifications": [
56                    "differentiated cell specimen"
57                ],
58                "sample_terms": [
59                    {
60                        "@id": "/sample-terms/CL_0000236/",
61                        "status": "released",
62                        "term_name": "B cell"
63                    }
64                ],
65                "status": "preview",
66                "summary": "Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 2 days",
67                "targeted_sample_term": {
68                    "@id": "/sample-terms/CL_0000980/",
69                    "status": "released",
70                    "term_name": "plasmablast"
71                },
72                "taxa": "Homo sapiens"
73            }
74        ],
75        "status": "preview",
76        "summary": "single-nucleus ATAC-seq (10x multiome)"
77    },
78    "file_size": 4165171660,
79    "gene_list_for": [],
80    "href": "/sequence-files/IGVFFI7400ROID/@@download/IGVFFI7400ROID.fastq.gz",
81    "illumina_read_type": "R3",
82    "input_file_for": [
83        "/matrix-files/IGVFFI6053CXKY/",
84        "/tabular-files/IGVFFI4235BPMB/",
85        "/tabular-files/IGVFFI9078MASJ/"
86    ],
87    "integrated_in": [],
88    "lab": {
89        "@id": "/labs/harinder-singh/",
90        "title": "Harinder Singh, University of Pittsburgh"
91    },
92    "lane": 2,
93    "loci_list_for": [],
94    "maximum_read_length": 49,
95    "md5sum": "f4a5289dd07569c3d745a57b8498792d",
96    "mean_read_length": 49,
97    "minimum_read_length": 49,
98    "quality_metrics": [],
99    "read_count": 129032433,
100    "read_names": [
101        "Read 2"
102    ],
103    "s3_uri": "s3://igvf-restricted-files/2025/03/04/ccb9436a-07fb-46a5-9ab0-92e8daf9f07d/IGVFFI7400ROID.fastq.gz",
104    "schema_version": "15",
105    "seqspecs": [
106        "/configuration-files/IGVFFI5220LVNC/"
107    ],
108    "sequencing_kit": "NovaSeq 6000 S1 Reagent Kit v1.5",
109    "sequencing_platform": {
110        "@id": "/platform-terms/EFO_0008637/",
111        "status": "released",
112        "term_name": "Illumina NovaSeq 6000"
113    },
114    "sequencing_run": 1,
115    "status": "preview",
116    "submitted_by": {
117        "@id": "/users/d2668d67-5e6f-49e8-82ca-7bb12229f892/",
118        "title": "Nicholas Pease"
119    },
120    "submitted_file_name": "/ix/djishnu/peasena/primary_multiome/donor1_upmc/fastqs/scATAC/NP002_01_120222_Singh_Multiome_scATAC_remade_SIN4251A4_S1_L002_R3_001.fastq.gz",
121    "summary": "R3 reads from sequencing run 1",
122    "upload_status": "validated",
123    "uuid": "ccb9436a-07fb-46a5-9ab0-92e8daf9f07d"
124}