IGVFFI6870AJBX

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/configuration-files/IGVFFI6870AJBX/",
4    "@type": [
5        "ConfigurationFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6870AJBX",
10    "aliases": [
11        "jay-shendure:seqspec_of_set_CRISPRa_singlevalidations_neurons_TCF4_rep2"
12    ],
13    "assay_titles": [
14        "RNA-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG011966/",
19        "component": "functional characterization"
20    },
21    "checkfiles_version": "v20",
22    "content_md5sum": "85a621b4ce620ca6a21ba29992cc2cf2",
23    "content_type": "seqspec",
24    "creation_timestamp": "2025-04-08T21:12:35.286348+00:00",
25    "derived_manually": false,
26    "file_format": "yaml",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS4796HVFQ/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS4796HVFQ",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0003090/",
37            "term_name": "bulk RNA-seq assay"
38        },
39        "controlled_access": false,
40        "data_use_limitation_summaries": [
41            "No limitations"
42        ],
43        "file_set_type": "experimental data",
44        "samples": [
45            {
46                "@id": "/in-vitro-systems/IGVFSM1303ELWI/",
47                "@type": [
48                    "InVitroSystem",
49                    "Biosample",
50                    "Sample",
51                    "Item"
52                ],
53                "accession": "IGVFSM1303ELWI",
54                "classifications": [
55                    "differentiated cell specimen"
56                ],
57                "modifications": [
58                    {
59                        "@id": "/crispr-modifications/426a4099-35d9-4c65-8851-5e788a3d4e70/",
60                        "modality": "activation",
61                        "status": "released",
62                        "summary": "CRISPRa Sp-dCas9-VPH"
63                    }
64                ],
65                "sample_terms": [
66                    {
67                        "@id": "/sample-terms/EFO_0009747/",
68                        "status": "released",
69                        "term_name": "GM25256 (WTC-11)"
70                    }
71                ],
72                "status": "released",
73                "summary": "Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to neuron for 19 days modified with CRISPRa Sp-dCas9-VPH, transfected with a guide library",
74                "targeted_sample_term": {
75                    "@id": "/sample-terms/CL_0000540/",
76                    "status": "released",
77                    "term_name": "neuron"
78                },
79                "taxa": "Homo sapiens"
80            }
81        ],
82        "status": "released",
83        "summary": "CRISPR activation RNA-seq integrating a guide (sgRNA) library targeting TF binding sites, candidate cis-regulatory elements in many genomic loci"
84    },
85    "file_size": 1018,
86    "gene_list_for": [],
87    "href": "/configuration-files/IGVFFI6870AJBX/@@download/IGVFFI6870AJBX.yaml.gz",
88    "input_file_for": [],
89    "integrated_in": [],
90    "lab": {
91        "@id": "/labs/jay-shendure/",
92        "title": "Jay Shendure, UW"
93    },
94    "loci_list_for": [],
95    "md5sum": "62ef61417eb936395e7fd5f6c5bb7fc0",
96    "quality_metrics": [],
97    "release_timestamp": "2025-05-27T18:59:40.802382+00:00",
98    "s3_uri": "s3://igvf-files/2025/04/08/56f423ad-3e24-4a7d-9b69-cc8d035ef1ed/IGVFFI6870AJBX.yaml.gz",
99    "schema_version": "8",
100    "seqspec_of": [
101        "/sequence-files/IGVFFI9417VJMJ/"
102    ],
103    "status": "released",
104    "submitted_by": {
105        "@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
106        "title": "Beth Martin"
107    },
108    "submitted_file_name": "/net/shendure/vol1/home/martin91/IGVF/forupload/seqspecs/CRISPRa-singleton-validations/CRISPRa_singleton_IGVFDS4796HVFQ_seqspec_v3.yaml.gz",
109    "summary": "seqspec of IGVFFI9417VJMJ",
110    "upload_status": "validated",
111    "uuid": "56f423ad-3e24-4a7d-9b69-cc8d035ef1ed",
112    "validate_onlist_files": false
113}