IGVFFI8371STUX

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI8371STUX/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI8371STUX",
10    "assay_titles": [
11        "lentiMPRA"
12    ],
13    "audit": {},
14    "award": {
15        "@id": "/awards/HG011966/",
16        "component": "functional characterization"
17    },
18    "content_md5sum": "8a08d765dc56bc26d9028077b392b37d",
19    "content_type": "reads",
20    "controlled_access": false,
21    "creation_timestamp": "2024-03-21T12:26:38.720428+00:00",
22    "description": "UMI reads HepG2 RNA count data of replicate 2",
23    "externally_hosted": false,
24    "file_format": "fastq",
25    "file_set": {
26        "@id": "/measurement-sets/IGVFDS5846SFBO/",
27        "@type": [
28            "MeasurementSet",
29            "FileSet",
30            "Item"
31        ],
32        "accession": "IGVFDS5846SFBO",
33        "assay_term": {
34            "@id": "/assay-terms/OBI_0002675/",
35            "term_name": "massively parallel reporter assay"
36        },
37        "file_set_type": "experimental data",
38        "samples": [
39            {
40                "@id": "/in-vitro-systems/IGVFSM9009DVDG/",
41                "@type": [
42                    "InVitroSystem",
43                    "Biosample",
44                    "Sample",
45                    "Item"
46                ],
47                "accession": "IGVFSM9009DVDG",
48                "classifications": [
49                    "cell line",
50                    "pooled cell specimen"
51                ],
52                "sample_terms": [
53                    {
54                        "@id": "/sample-terms/EFO_0001187/",
55                        "status": "released",
56                        "term_name": "HepG2"
57                    }
58                ],
59                "status": "released",
60                "summary": "Homo sapiens (male) HepG2 pooled cell specimen transduced (lentivirus) with a reporter library",
61                "taxa": "Homo sapiens"
62            }
63        ],
64        "status": "released",
65        "summary": "lentiMPRA integrating a reporter library targeting candidate cis-regulatory elements genome-wide"
66    },
67    "file_size": 1370372104,
68    "gene_list_for": [],
69    "href": "/sequence-files/IGVFFI8371STUX/@@download/IGVFFI8371STUX.fastq.gz",
70    "illumina_read_type": "R2",
71    "input_file_for": [
72        "/tabular-files/IGVFFI5781OGFX/",
73        "/tabular-files/IGVFFI6630MFYW/",
74        "/tabular-files/IGVFFI1492BOLP/",
75        "/tabular-files/IGVFFI6610QZXO/",
76        "/tabular-files/IGVFFI4370VABN/",
77        "/tabular-files/IGVFFI8088ZTLN/"
78    ],
79    "integrated_in": [],
80    "lab": {
81        "@id": "/labs/nadav-ahituv/",
82        "title": "Nadav Ahituv, UCSF"
83    },
84    "loci_list_for": [],
85    "maximum_read_length": 16,
86    "md5sum": "92a8f1be44065e265a6ae051026666c7",
87    "mean_read_length": 16,
88    "minimum_read_length": 16,
89    "quality_metrics": [],
90    "read_count": 83050124,
91    "read_names": [
92        "UMI"
93    ],
94    "release_timestamp": "2025-01-30T17:47:27.684416+00:00",
95    "s3_uri": "s3://igvf-files/2024/03/21/0cd88663-4447-4094-bd4b-8d4f6fa671e8/IGVFFI8371STUX.fastq.gz",
96    "schema_version": "15",
97    "seqspecs": [
98        "/configuration-files/IGVFFI9044QYNE/"
99    ],
100    "sequencing_kit": "NextSeq 500 High Output v2 Kit",
101    "sequencing_platform": {
102        "@id": "/platform-terms/EFO_0009173/",
103        "status": "released",
104        "term_name": "Illumina NextSeq 500"
105    },
106    "sequencing_run": 2,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/696ac72c-9846-469d-8bf1-8bd01856d4ba/",
110        "title": "Thorben Maass"
111    },
112    "submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/ag-kircher/IGVF_data_submssion_TM/proximalPromotor/run2/rna-2_S5_R2_001.fastq.gz\"",
113    "submitter_comment": "seqrun2",
114    "summary": "R2 reads from sequencing run 2",
115    "upload_status": "validated",
116    "uuid": "0cd88663-4447-4094-bd4b-8d4f6fa671e8"
117}