IGVFFI6587ONPF

1{
2    "@context": "/terms/",
3    "@id": "/configuration-files/IGVFFI6587ONPF/",
4    "@type": [
5        "ConfigurationFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6587ONPF",
10    "aliases": [
11        "charles-gersbach:hPA-Seqspec-perturbseq-10xlane1-GEX-L1"
12    ],
13    "assay_titles": [
14        "Perturb-seq"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012053/",
19        "component": "functional characterization"
20    },
21    "checkfiles_version": "v23",
22    "content_md5sum": "5805f10ead720cdecee2a75a18380860",
23    "content_type": "seqspec",
24    "creation_timestamp": "2025-04-09T21:13:05.244720+00:00",
25    "derived_manually": false,
26    "file_format": "yaml",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS0886UBIB/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS0886UBIB",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0003660/",
37            "term_name": "in vitro CRISPR screen using single-cell RNA-seq"
38        },
39        "data_use_limitation_summaries": [
40            "no certificate"
41        ],
42        "file_set_type": "experimental data",
43        "samples": [
44            {
45                "@id": "/primary-cells/IGVFSM7138HWZK/",
46                "@type": [
47                    "PrimaryCell",
48                    "Biosample",
49                    "Sample",
50                    "Item"
51                ],
52                "accession": "IGVFSM7138HWZK",
53                "classifications": [
54                    "primary cell"
55                ],
56                "modifications": [
57                    {
58                        "@id": "/crispr-modifications/703c3934-6c9b-41d0-8481-e73cc64075f7/",
59                        "modality": "activation",
60                        "status": "released",
61                        "summary": "CRISPRa Sp-dCas9-2xVP64-2A-Puro"
62                    }
63                ],
64                "sample_terms": [
65                    {
66                        "@id": "/sample-terms/CL_0000127/",
67                        "status": "released",
68                        "term_name": "astrocyte"
69                    }
70                ],
71                "status": "released",
72                "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",
73                "taxa": "Homo sapiens",
74                "treatments": [
75                    {
76                        "@id": "/treatments/c7e73583-b639-473f-84c4-947cdc0bd81d/",
77                        "purpose": "differentiation",
78                        "status": "in progress",
79                        "summary": "Treatment of 20 ng/mL Brain-Derived Neurotrophic Factor",
80                        "treatment_term_name": "Brain-Derived Neurotrophic Factor"
81                    },
82                    {
83                        "@id": "/treatments/e23aab02-ae82-4935-85ad-1f238757f3ba/",
84                        "purpose": "differentiation",
85                        "status": "in progress",
86                        "summary": "Treatment of 10 ng/mL Neurotrophin-3",
87                        "treatment_term_name": "Neurotrophin-3"
88                    }
89                ]
90            }
91        ],
92        "status": "released",
93        "summary": "CRISPR activation Perturb-seq integrating a guide (sgRNA) library targeting transcription start sites in many genes"
94    },
95    "file_size": 1304,
96    "gene_list_for": [],
97    "href": "/configuration-files/IGVFFI6587ONPF/@@download/IGVFFI6587ONPF.yaml.gz",
98    "input_file_for": [],
99    "integrated_in": [],
100    "lab": {
101        "@id": "/labs/charles-gersbach/",
102        "title": "Charles Gersbach, Duke"
103    },
104    "loci_list_for": [],
105    "md5sum": "6407a9917f57ea9247b8c9658795274d",
106    "quality_metrics": [],
107    "release_timestamp": "2025-05-16T16:07:07.596815+00:00",
108    "s3_uri": "s3://igvf-files/2025/04/09/0009e026-d0f0-40e0-8bab-9406f46cf550/IGVFFI6587ONPF.yaml.gz",
109    "schema_version": "8",
110    "seqspec_of": [
111        "/sequence-files/IGVFFI8843ZBZD/",
112        "/sequence-files/IGVFFI9089DYXF/"
113    ],
114    "status": "released",
115    "submitted_by": {
116        "@id": "/users/3782ce69-0e9f-4b46-91f9-4578139785c7/",
117        "title": "Ruhi Rai"
118    },
119    "submitted_file_name": "/work/rr151/SamAIM2neuro_data/AstrocytehPA-Seqspec-10xlane1-GEX-L1.yaml.gz",
120    "summary": "seqspec of IGVFFI8843ZBZD, IGVFFI9089DYXF",
121    "upload_status": "validated",
122    "uuid": "0009e026-d0f0-40e0-8bab-9406f46cf550",
123    "validate_onlist_files": true
124}