IGVFFI7174NOZD

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI7174NOZD/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI7174NOZD",
10    "aliases": [
11        "jay-shendure:CRISPRa_singlevalidations_K562_ASIC1_rep2_R2"
12    ],
13    "assay_titles": [
14        "RNA-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011966/",
19        "component": "functional characterization"
20    },
21    "content_md5sum": "5c82e3eb58f30d9c067aa200da8d878c",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2024-10-18T16:36:00.583506+00:00",
25    "derived_manually": false,
26    "externally_hosted": false,
27    "file_format": "fastq",
28    "file_set": {
29        "@id": "/measurement-sets/IGVFDS6639ECQN/",
30        "@type": [
31            "MeasurementSet",
32            "FileSet",
33            "Item"
34        ],
35        "accession": "IGVFDS6639ECQN",
36        "assay_term": {
37            "@id": "/assay-terms/OBI_0003090/",
38            "term_name": "bulk RNA-seq assay"
39        },
40        "controlled_access": false,
41        "data_use_limitation_summaries": [
42            "No limitations"
43        ],
44        "file_set_type": "experimental data",
45        "samples": [
46            {
47                "@id": "/in-vitro-systems/IGVFSM4685GWVU/",
48                "@type": [
49                    "InVitroSystem",
50                    "Biosample",
51                    "Sample",
52                    "Item"
53                ],
54                "accession": "IGVFSM4685GWVU",
55                "classifications": [
56                    "cell line"
57                ],
58                "modifications": [
59                    {
60                        "@id": "/crispr-modifications/ee99bf66-2a5a-4ec6-8380-9434b259afd1/",
61                        "modality": "activation",
62                        "status": "released",
63                        "summary": "CRISPRa Sp-dCas9-VP64"
64                    }
65                ],
66                "sample_terms": [
67                    {
68                        "@id": "/sample-terms/EFO_0002067/",
69                        "status": "released",
70                        "term_name": "K562"
71                    }
72                ],
73                "status": "released",
74                "summary": "Homo sapiens (female) K562 cell line modified with CRISPRa Sp-dCas9-VP64, transfected with a guide library",
75                "taxa": "Homo sapiens"
76            }
77        ],
78        "status": "released",
79        "summary": "CRISPR activation RNA-seq integrating a guide (sgRNA) library targeting TF binding sites, candidate cis-regulatory elements in many genomic loci"
80    },
81    "file_size": 103969485,
82    "gene_list_for": [],
83    "href": "/sequence-files/IGVFFI7174NOZD/@@download/IGVFFI7174NOZD.fastq.gz",
84    "input_file_for": [
85        "/tabular-files/IGVFFI0765KKLP/"
86    ],
87    "integrated_in": [],
88    "lab": {
89        "@id": "/labs/jay-shendure/",
90        "title": "Jay Shendure, UW"
91    },
92    "lane": 1,
93    "loci_list_for": [],
94    "maximum_read_length": 110,
95    "md5sum": "081ea7f3baea2e06c3c73c8524f67189",
96    "mean_read_length": 110,
97    "minimum_read_length": 110,
98    "quality_metrics": [],
99    "read_count": 1875688,
100    "release_timestamp": "2025-05-29T21:02:02.842657+00:00",
101    "s3_uri": "s3://igvf-files/2024/10/18/8579671a-2bef-4b92-8593-169084e9f02e/IGVFFI7174NOZD.fastq.gz",
102    "schema_version": "16",
103    "seqspecs": [
104        "/configuration-files/IGVFFI6318YYQN/"
105    ],
106    "sequencing_kit": "NextSeq 1000/2000 P1 Reagent Kit",
107    "sequencing_platform": {
108        "@id": "/platform-terms/EFO_0010963/",
109        "status": "released",
110        "term_name": "Illumina NextSeq 2000"
111    },
112    "sequencing_run": 1,
113    "status": "released",
114    "submitted_by": {
115        "@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
116        "title": "Beth Martin"
117    },
118    "submitted_file_name": "/net/shendure/vol10/projects/IGVFtemp/pooled_fastqs/K562_gRNA_7_Rep_2_ASIC1_S14_R2_001.fastq.gz",
119    "summary": "reads from sequencing run 1",
120    "upload_status": "validated",
121    "uuid": "8579671a-2bef-4b92-8593-169084e9f02e"
122}