IGVFFI6934AJFE

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI6934AJFE/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI6934AJFE",
10    "assay_titles": [
11        "CRISPR FlowFISH screen"
12    ],
13    "audit": {},
14    "award": {
15        "@id": "/awards/HG011972/",
16        "component": "functional characterization"
17    },
18    "content_md5sum": "5537cf5a0d711d197a322b4f92e5e7de",
19    "content_type": "reads",
20    "controlled_access": false,
21    "creation_timestamp": "2024-04-16T21:42:49.467692+00:00",
22    "externally_hosted": false,
23    "file_format": "fastq",
24    "file_set": {
25        "@id": "/measurement-sets/IGVFDS9435GPPF/",
26        "@type": [
27            "MeasurementSet",
28            "FileSet",
29            "Item"
30        ],
31        "accession": "IGVFDS9435GPPF",
32        "assay_term": {
33            "@id": "/assay-terms/OBI_0003661/",
34            "term_name": "in vitro CRISPR screen using flow cytometry"
35        },
36        "file_set_type": "experimental data",
37        "samples": [
38            {
39                "@id": "/in-vitro-systems/IGVFSM9488LHID/",
40                "@type": [
41                    "InVitroSystem",
42                    "Biosample",
43                    "Sample",
44                    "Item"
45                ],
46                "accession": "IGVFSM9488LHID",
47                "classifications": [
48                    "cell line"
49                ],
50                "modifications": [
51                    {
52                        "@id": "/crispr-modifications/b4bc725a-8eeb-4180-9789-bece3516c0c1/",
53                        "modality": "interference",
54                        "status": "released",
55                        "summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
56                    }
57                ],
58                "sample_terms": [
59                    {
60                        "@id": "/sample-terms/NTR_0000753/",
61                        "status": "released",
62                        "term_name": "TeloHAEC"
63                    }
64                ],
65                "status": "released",
66                "summary": "Homo sapiens (female) TeloHAEC cell line (sorting details: FACS bin B for 26-50% expression of NOS3) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
67                "taxa": "Homo sapiens"
68            }
69        ],
70        "status": "released",
71        "summary": "CRISPR interference FlowFISH screen sorted on the expression of NOS3 integrating a guide (sgRNA) library targeting sequence variants, transcription start sites in NOS3"
72    },
73    "file_size": 6563897,
74    "gene_list_for": [],
75    "href": "/sequence-files/IGVFFI6934AJFE/@@download/IGVFFI6934AJFE.fastq.gz",
76    "illumina_read_type": "I2",
77    "input_file_for": [],
78    "integrated_in": [],
79    "lab": {
80        "@id": "/labs/jesse-engreitz/",
81        "title": "Jesse Engreitz, Stanford"
82    },
83    "loci_list_for": [],
84    "maximum_read_length": 8,
85    "md5sum": "fecfb93eea07db5390dddd59838853c4",
86    "mean_read_length": 8,
87    "minimum_read_length": 8,
88    "quality_metrics": [],
89    "read_count": 798661,
90    "release_timestamp": "2024-06-22T00:27:25.491743+00:00",
91    "s3_uri": "s3://igvf-files/2024/04/16/8fbe81de-326e-4e2b-8222-a1aeace44f2e/IGVFFI6934AJFE.fastq.gz",
92    "schema_version": "15",
93    "seqspecs": [],
94    "sequencing_kit": "MiSeq Reagent Kit v2",
95    "sequencing_platform": {
96        "@id": "/platform-terms/EFO_0004205/",
97        "status": "released",
98        "term_name": "Illumina MiSeq"
99    },
100    "sequencing_run": 1,
101    "status": "released",
102    "submitted_by": {
103        "@id": "/users/3bd6f74c-8cf3-4c35-a94d-0c7c11654815/",
104        "title": "Chongyon Park"
105    },
106    "submitted_file_name": "/Desktop/NOS3/NOS3_CRISPRi_FlowFISH/231215S023-TeloHAEC-P219-Amp_NOS3-BioRep1-FFrep1-BinB-PCRrep1_S114_I2_001.fastq.gz",
107    "summary": "I2 reads from sequencing run 1",
108    "upload_status": "validated",
109    "uuid": "8fbe81de-326e-4e2b-8222-a1aeace44f2e"
110}