IGVFFI0809FYWC

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI0809FYWC/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI0809FYWC",
10    "assay_titles": [
11        "lentiMPRA"
12    ],
13    "audit": {},
14    "award": {
15        "@id": "/awards/HG011966/",
16        "component": "functional characterization"
17    },
18    "content_md5sum": "8727bf2090584fd79b56e8f3f47968e6",
19    "content_type": "reads",
20    "controlled_access": false,
21    "creation_timestamp": "2024-10-15T08:47:44.373921+00:00",
22    "description": "UMI reads HEK293T RNA count data of replicate 2",
23    "externally_hosted": false,
24    "file_format": "fastq",
25    "file_set": {
26        "@id": "/measurement-sets/IGVFDS3908QZCZ/",
27        "@type": [
28            "MeasurementSet",
29            "FileSet",
30            "Item"
31        ],
32        "accession": "IGVFDS3908QZCZ",
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/IGVFSM8026MGEJ/",
41                "@type": [
42                    "InVitroSystem",
43                    "Biosample",
44                    "Sample",
45                    "Item"
46                ],
47                "accession": "IGVFSM8026MGEJ",
48                "classifications": [
49                    "cell line",
50                    "pooled cell specimen"
51                ],
52                "sample_terms": [
53                    {
54                        "@id": "/sample-terms/EFO_0001184/",
55                        "status": "released",
56                        "term_name": "HEK293T"
57                    }
58                ],
59                "status": "released",
60                "summary": "Homo sapiens (female) HEK293T 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": 2389909889,
68    "gene_list_for": [],
69    "href": "/sequence-files/IGVFFI0809FYWC/@@download/IGVFFI0809FYWC.fastq.gz",
70    "illumina_read_type": "R2",
71    "input_file_for": [
72        "/tabular-files/IGVFFI3395FJLK/",
73        "/tabular-files/IGVFFI6179OMKY/",
74        "/tabular-files/IGVFFI3765GJLD/",
75        "/tabular-files/IGVFFI6942SEEH/",
76        "/tabular-files/IGVFFI2451LQDL/",
77        "/tabular-files/IGVFFI9432KCNV/"
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": "d73bceed07ecf76146a01c958bc47cab",
87    "mean_read_length": 16,
88    "minimum_read_length": 16,
89    "quality_metrics": [],
90    "read_count": 141439854,
91    "read_names": [
92        "UMI"
93    ],
94    "release_timestamp": "2025-01-30T17:46:55.394987+00:00",
95    "s3_uri": "s3://igvf-files/2024/10/15/efc36de1-59ca-4687-acb9-2c9c5eaf5b64/IGVFFI0809FYWC.fastq.gz",
96    "schema_version": "15",
97    "seqspecs": [
98        "/configuration-files/IGVFFI4648WGOB/"
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": 3,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/3ad3479d-753b-4293-9c09-c0dcabfd0ddb/",
110        "title": "Max Schubach"
111    },
112    "submitted_file_name": "\"/data/cephfs-2/unmirrored/groups/kircher/IGVF_data_submssion_TM/proximalPromotor/count/HEK293T/run3/293T-RNA-2_S4_R2_001.fastq.gz\"",
113    "submitter_comment": "seqrun3",
114    "summary": "R2 reads from sequencing run 3",
115    "upload_status": "validated",
116    "uuid": "efc36de1-59ca-4687-acb9-2c9c5eaf5b64"
117}