IGVFFI3025IEAV

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/configuration-files/IGVFFI3025IEAV/",
4    "@type": [
5        "ConfigurationFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI3025IEAV",
10    "aliases": [
11        "charles-gersbach:hPA-Seqspec-perturbseq-10xlane1-CRISPR-L2"
12    ],
13    "assay_titles": [
14        "Perturb-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012053/",
19        "component": "functional characterization"
20    },
21    "checkfiles_version": "v20",
22    "content_md5sum": "db2ad3596e4ccf3558e5328276dc648b",
23    "content_type": "seqspec",
24    "creation_timestamp": "2025-04-09T21:13:24.863769+00:00",
25    "derived_manually": false,
26    "file_format": "yaml",
27    "file_set": {
28        "@id": "/auxiliary-sets/IGVFDS7994GDON/",
29        "@type": [
30            "AuxiliarySet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS7994GDON",
35        "data_use_limitation_summaries": [
36            "no certificate"
37        ],
38        "file_set_type": "gRNA sequencing",
39        "samples": [
40            {
41                "@id": "/primary-cells/IGVFSM7138HWZK/",
42                "@type": [
43                    "PrimaryCell",
44                    "Biosample",
45                    "Sample",
46                    "Item"
47                ],
48                "accession": "IGVFSM7138HWZK",
49                "classifications": [
50                    "primary cell"
51                ],
52                "modifications": [
53                    {
54                        "@id": "/crispr-modifications/703c3934-6c9b-41d0-8481-e73cc64075f7/",
55                        "modality": "activation",
56                        "status": "released",
57                        "summary": "CRISPRa Sp-dCas9-2xVP64-2A-Puro"
58                    }
59                ],
60                "sample_terms": [
61                    {
62                        "@id": "/sample-terms/CL_0000127/",
63                        "status": "released",
64                        "term_name": "astrocyte"
65                    }
66                ],
67                "status": "released",
68                "summary": "Homo sapiens astrocyte cell treated with 10 ng/mL Neurotrophin-3, 20 ng/mL Brain-Derived Neurotrophic Factor, modified with CRISPRa Sp-dCas9-2xVP64-2A-Puro, transduced (lentivirus) with a guide library",
69                "taxa": "Homo sapiens",
70                "treatments": [
71                    {
72                        "@id": "/treatments/c7e73583-b639-473f-84c4-947cdc0bd81d/",
73                        "purpose": "differentiation",
74                        "status": "in progress",
75                        "summary": "Treatment of 20 ng/mL Brain-Derived Neurotrophic Factor",
76                        "treatment_term_name": "Brain-Derived Neurotrophic Factor"
77                    },
78                    {
79                        "@id": "/treatments/e23aab02-ae82-4935-85ad-1f238757f3ba/",
80                        "purpose": "differentiation",
81                        "status": "in progress",
82                        "summary": "Treatment of 10 ng/mL Neurotrophin-3",
83                        "treatment_term_name": "Neurotrophin-3"
84                    }
85                ]
86            }
87        ],
88        "status": "released",
89        "summary": "gRNA sequencing for CRISPR activation Perturb-seq integrating a guide (sgRNA) library targeting transcription start sites in many genes"
90    },
91    "file_size": 1445,
92    "gene_list_for": [],
93    "href": "/configuration-files/IGVFFI3025IEAV/@@download/IGVFFI3025IEAV.yaml.gz",
94    "input_file_for": [],
95    "integrated_in": [],
96    "lab": {
97        "@id": "/labs/charles-gersbach/",
98        "title": "Charles Gersbach, Duke"
99    },
100    "loci_list_for": [],
101    "md5sum": "69de27c3e52bc84154958fb35228b86e",
102    "quality_metrics": [],
103    "release_timestamp": "2025-05-16T16:07:07.822566+00:00",
104    "s3_uri": "s3://igvf-files/2025/04/09/9320b7b6-3f75-4f75-9887-b667496f78ec/IGVFFI3025IEAV.yaml.gz",
105    "schema_version": "8",
106    "seqspec_of": [
107        "/sequence-files/IGVFFI8354OSIZ/",
108        "/sequence-files/IGVFFI5890JKQC/"
109    ],
110    "status": "released",
111    "submitted_by": {
112        "@id": "/users/3782ce69-0e9f-4b46-91f9-4578139785c7/",
113        "title": "Ruhi Rai"
114    },
115    "submitted_file_name": "/work/rr151/SamAIM2neuro_data/AstrocytehPA-Seqspec-10xlane1-crispr-L2.yaml.gz",
116    "summary": "seqspec of IGVFFI8354OSIZ, IGVFFI5890JKQC",
117    "upload_status": "validated",
118    "uuid": "9320b7b6-3f75-4f75-9887-b667496f78ec",
119    "validate_onlist_files": false
120}