IGVFFI9445FKJB

released
validated
1{
2    "@context": "/terms/",
3    "@id": "/sequence-files/IGVFFI9445FKJB/",
4    "@type": [
5        "SequenceFile",
6        "File",
7        "Item"
8    ],
9    "accession": "IGVFFI9445FKJB",
10    "aliases": [
11        "guillaume-lettre:BP_screen_ABE8_L_R2_1_read2"
12    ],
13    "assay_titles": [
14        "CRISPR FlowFISH screen"
15    ],
16    "audit": {},
17    "award": {
18        "@id": "/awards/HG012010/",
19        "component": "functional characterization"
20    },
21    "content_md5sum": "ef6a199cb669909a27687c74fbce5684",
22    "content_type": "reads",
23    "controlled_access": false,
24    "creation_timestamp": "2024-11-15T20:27:09.151518+00:00",
25    "externally_hosted": false,
26    "file_format": "fastq",
27    "file_set": {
28        "@id": "/measurement-sets/IGVFDS0914FEJH/",
29        "@type": [
30            "MeasurementSet",
31            "FileSet",
32            "Item"
33        ],
34        "accession": "IGVFDS0914FEJH",
35        "assay_term": {
36            "@id": "/assay-terms/OBI_0003661/",
37            "term_name": "in vitro CRISPR screen using flow cytometry"
38        },
39        "file_set_type": "experimental data",
40        "samples": [
41            {
42                "@id": "/in-vitro-systems/IGVFSM4252CACF/",
43                "@type": [
44                    "InVitroSystem",
45                    "Biosample",
46                    "Sample",
47                    "Item"
48                ],
49                "accession": "IGVFSM4252CACF",
50                "classifications": [
51                    "cell line"
52                ],
53                "modifications": [
54                    {
55                        "@id": "/crispr-modifications/53d408bd-fa43-4ed3-be6d-db4ab82f7820/",
56                        "modality": "base editing",
57                        "status": "in progress",
58                        "summary": "CRISPR base editing SpRY-ABE8e"
59                    }
60                ],
61                "sample_terms": [
62                    {
63                        "@id": "/sample-terms/NTR_0000753/",
64                        "status": "released",
65                        "term_name": "TeloHAEC"
66                    }
67                ],
68                "status": "released",
69                "summary": "Homo sapiens (female) TeloHAEC cell line (sorting details: FACS 20-40% expression of NFKBIA) modified with CRISPR base editing SpRY-ABE8e, transduced (lentivirus) with a guide library",
70                "taxa": "Homo sapiens"
71            }
72        ],
73        "status": "released",
74        "summary": "CRISPR base editing FlowFISH screen sorted on the expression of NFKBIA integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide associated with blood pressure"
75    },
76    "file_size": 1819659776,
77    "gene_list_for": [],
78    "href": "/sequence-files/IGVFFI9445FKJB/@@download/IGVFFI9445FKJB.fastq.gz",
79    "illumina_read_type": "R2",
80    "input_file_for": [
81        "/tabular-files/IGVFFI6385KRSZ/",
82        "/tabular-files/IGVFFI0796UODY/"
83    ],
84    "integrated_in": [],
85    "lab": {
86        "@id": "/labs/guillaume-lettre/",
87        "title": "Guillaume Lettre, MHI"
88    },
89    "loci_list_for": [],
90    "maximum_read_length": 151,
91    "md5sum": "a059ea81aabe4a42590360ff9e2ea583",
92    "mean_read_length": 151,
93    "minimum_read_length": 151,
94    "quality_metrics": [],
95    "read_count": 33176669,
96    "release_timestamp": "2025-03-07T23:05:05.390873+00:00",
97    "s3_uri": "s3://igvf-files/2024/11/15/ec90acc4-6251-449a-99a7-942f58a0b4c1/IGVFFI9445FKJB.fastq.gz",
98    "schema_version": "15",
99    "seqspecs": [],
100    "sequencing_kit": "NovaSeq 6000 SP Reagent Kit v1.5",
101    "sequencing_platform": {
102        "@id": "/platform-terms/EFO_0008637/",
103        "status": "released",
104        "term_name": "Illumina NovaSeq 6000"
105    },
106    "sequencing_run": 1,
107    "status": "released",
108    "submitted_by": {
109        "@id": "/users/005a9a1c-02ab-408f-90a9-d6bea5c36d05/",
110        "title": "Ken Sin Lo"
111    },
112    "submitted_file_name": "/home/lokensin/projects/rrg-glettre/sequencing_datastore/raw_data/BE_IGVF_20230720/samples/NS.X0070.001.IndexR1_26.L_R2_1_R2.fastq.gz",
113    "summary": "R2 reads from sequencing run 1",
114    "upload_status": "validated",
115    "uuid": "ec90acc4-6251-449a-99a7-942f58a0b4c1"
116}