{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS2840EKZI/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS2840EKZI",
"aliases": [
"jesse-engreitz:230423pPPIFEnformer-Jurkat-Amp_PPIF_promoter-BioRep2-FFrep3-BinC_AmpliconSequencing"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003661/",
"status": "released",
"term_name": "in vitro CRISPR screen using flow cytometry"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM6618IGOS](/in-vitro-systems/IGVFSM6618IGOS/) has in progress subobject construct library set [IGVFDS2385DHZO](/construct-library-sets/IGVFDS2385DHZO/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM6618IGOS/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS2840EKZI](/measurement-sets/IGVFDS2840EKZI/) has sequence file(s) [IGVFFI4418LEXH](/sequence-files/IGVFFI4418LEXH/), [IGVFFI7401ZKTG](/sequence-files/IGVFFI7401ZKTG/), [IGVFFI5261TGLF](/sequence-files/IGVFFI5261TGLF/), [IGVFFI9743FXHS](/sequence-files/IGVFFI9743FXHS/), [IGVFFI5275PFJX](/sequence-files/IGVFFI5275PFJX/), [IGVFFI1302KPOP](/sequence-files/IGVFFI1302KPOP/), [IGVFFI9673CGUQ](/sequence-files/IGVFFI9673CGUQ/), [IGVFFI8938LHYF](/sequence-files/IGVFFI8938LHYF/), [IGVFFI9705BHNF](/sequence-files/IGVFFI9705BHNF/), [IGVFFI8362ATFS](/sequence-files/IGVFFI8362ATFS/), [IGVFFI9343NCCM](/sequence-files/IGVFFI9343NCCM/), [IGVFFI4900SGGG](/sequence-files/IGVFFI4900SGGG/), [IGVFFI9824XZLY](/sequence-files/IGVFFI9824XZLY/), [IGVFFI0560VGRG](/sequence-files/IGVFFI0560VGRG/), [IGVFFI3611PDCW](/sequence-files/IGVFFI3611PDCW/), [IGVFFI5052LQEQ](/sequence-files/IGVFFI5052LQEQ/), [IGVFFI3855TMQP](/sequence-files/IGVFFI3855TMQP/), [IGVFFI3930ZOWK](/sequence-files/IGVFFI3930ZOWK/), [IGVFFI7936TMWF](/sequence-files/IGVFFI7936TMWF/), [IGVFFI2901MLSA](/sequence-files/IGVFFI2901MLSA/), [IGVFFI0334XULB](/sequence-files/IGVFFI0334XULB/), [IGVFFI1182QGFY](/sequence-files/IGVFFI1182QGFY/), [IGVFFI6986UGWD](/sequence-files/IGVFFI6986UGWD/), [IGVFFI5631FGZL](/sequence-files/IGVFFI5631FGZL/), [IGVFFI2388IZTL](/sequence-files/IGVFFI2388IZTL/), [IGVFFI1144SIWW](/sequence-files/IGVFFI1144SIWW/), [IGVFFI2166XOMZ](/sequence-files/IGVFFI2166XOMZ/), [IGVFFI0800XMRX](/sequence-files/IGVFFI0800XMRX/), [IGVFFI0164OREL](/sequence-files/IGVFFI0164OREL/), [IGVFFI8428LUMF](/sequence-files/IGVFFI8428LUMF/), [IGVFFI5194SJJM](/sequence-files/IGVFFI5194SJJM/), [IGVFFI8427AOJM](/sequence-files/IGVFFI8427AOJM/), [IGVFFI3204WWUO](/sequence-files/IGVFFI3204WWUO/), [IGVFFI7307WOQE](/sequence-files/IGVFFI7307WOQE/), [IGVFFI5022KHTB](/sequence-files/IGVFFI5022KHTB/), [IGVFFI9344DUYZ](/sequence-files/IGVFFI9344DUYZ/), [IGVFFI5538XZUE](/sequence-files/IGVFFI5538XZUE/), [IGVFFI3120KSDW](/sequence-files/IGVFFI3120KSDW/), [IGVFFI3501JYBV](/sequence-files/IGVFFI3501JYBV/), [IGVFFI1880PLDA](/sequence-files/IGVFFI1880PLDA/), [IGVFFI2670BBNP](/sequence-files/IGVFFI2670BBNP/), [IGVFFI3043TMDH](/sequence-files/IGVFFI3043TMDH/), [IGVFFI7497BWQL](/sequence-files/IGVFFI7497BWQL/), [IGVFFI2381WRZI](/sequence-files/IGVFFI2381WRZI/), [IGVFFI7338SXVG](/sequence-files/IGVFFI7338SXVG/), [IGVFFI9560GGIR](/sequence-files/IGVFFI9560GGIR/), [IGVFFI3612VVSP](/sequence-files/IGVFFI3612VVSP/), [IGVFFI0794GHTL](/sequence-files/IGVFFI0794GHTL/) which lack specification of a `sequencing_kit`. Sequence files should specify a sequencing kit.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_inconsistent_sequencing_kit",
"path": "/measurement-sets/IGVFDS2840EKZI/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS2840EKZI](/measurement-sets/IGVFDS2840EKZI/) has sequence file(s): [IGVFFI4418LEXH](/sequence-files/IGVFFI4418LEXH/), [IGVFFI7401ZKTG](/sequence-files/IGVFFI7401ZKTG/), [IGVFFI5261TGLF](/sequence-files/IGVFFI5261TGLF/), [IGVFFI9743FXHS](/sequence-files/IGVFFI9743FXHS/), [IGVFFI5275PFJX](/sequence-files/IGVFFI5275PFJX/), [IGVFFI1302KPOP](/sequence-files/IGVFFI1302KPOP/), [IGVFFI9673CGUQ](/sequence-files/IGVFFI9673CGUQ/), [IGVFFI8938LHYF](/sequence-files/IGVFFI8938LHYF/), [IGVFFI9705BHNF](/sequence-files/IGVFFI9705BHNF/), [IGVFFI8362ATFS](/sequence-files/IGVFFI8362ATFS/), [IGVFFI9343NCCM](/sequence-files/IGVFFI9343NCCM/), [IGVFFI4900SGGG](/sequence-files/IGVFFI4900SGGG/), [IGVFFI9824XZLY](/sequence-files/IGVFFI9824XZLY/), [IGVFFI0560VGRG](/sequence-files/IGVFFI0560VGRG/), [IGVFFI3611PDCW](/sequence-files/IGVFFI3611PDCW/), [IGVFFI5052LQEQ](/sequence-files/IGVFFI5052LQEQ/), [IGVFFI3855TMQP](/sequence-files/IGVFFI3855TMQP/), [IGVFFI3930ZOWK](/sequence-files/IGVFFI3930ZOWK/), [IGVFFI7936TMWF](/sequence-files/IGVFFI7936TMWF/), [IGVFFI2901MLSA](/sequence-files/IGVFFI2901MLSA/), [IGVFFI0334XULB](/sequence-files/IGVFFI0334XULB/), [IGVFFI1182QGFY](/sequence-files/IGVFFI1182QGFY/), [IGVFFI6986UGWD](/sequence-files/IGVFFI6986UGWD/), [IGVFFI5631FGZL](/sequence-files/IGVFFI5631FGZL/), [IGVFFI2388IZTL](/sequence-files/IGVFFI2388IZTL/), [IGVFFI1144SIWW](/sequence-files/IGVFFI1144SIWW/), [IGVFFI2166XOMZ](/sequence-files/IGVFFI2166XOMZ/), [IGVFFI0800XMRX](/sequence-files/IGVFFI0800XMRX/), [IGVFFI0164OREL](/sequence-files/IGVFFI0164OREL/), [IGVFFI8428LUMF](/sequence-files/IGVFFI8428LUMF/), [IGVFFI5194SJJM](/sequence-files/IGVFFI5194SJJM/), [IGVFFI8427AOJM](/sequence-files/IGVFFI8427AOJM/), [IGVFFI3204WWUO](/sequence-files/IGVFFI3204WWUO/), [IGVFFI7307WOQE](/sequence-files/IGVFFI7307WOQE/), [IGVFFI5022KHTB](/sequence-files/IGVFFI5022KHTB/), [IGVFFI9344DUYZ](/sequence-files/IGVFFI9344DUYZ/), [IGVFFI5538XZUE](/sequence-files/IGVFFI5538XZUE/), [IGVFFI3120KSDW](/sequence-files/IGVFFI3120KSDW/), [IGVFFI3501JYBV](/sequence-files/IGVFFI3501JYBV/), [IGVFFI1880PLDA](/sequence-files/IGVFFI1880PLDA/), [IGVFFI2670BBNP](/sequence-files/IGVFFI2670BBNP/), [IGVFFI3043TMDH](/sequence-files/IGVFFI3043TMDH/), [IGVFFI7497BWQL](/sequence-files/IGVFFI7497BWQL/), [IGVFFI2381WRZI](/sequence-files/IGVFFI2381WRZI/), [IGVFFI7338SXVG](/sequence-files/IGVFFI7338SXVG/), [IGVFFI9560GGIR](/sequence-files/IGVFFI9560GGIR/), [IGVFFI3612VVSP](/sequence-files/IGVFFI3612VVSP/), [IGVFFI0794GHTL](/sequence-files/IGVFFI0794GHTL/) which do not have any `seqspecs`. Sequence files in a file set are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS2840EKZI/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS2840EKZI](/measurement-sets/IGVFDS2840EKZI/) has no cell sorting `auxiliary_sets`. CRISPR-based measurement sets that utilize flow cytometry are expected to link to a cell sorting auxiliary set.",
"level": 40,
"level_name": "WARNING",
"name": "audit_missing_auxiliary_set",
"path": "/measurement-sets/IGVFDS2840EKZI/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization",
"contact_pi": {
"@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
"title": "Jesse Engreitz"
},
"title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
},
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{
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"accession": "IGVFDS4869FXYY",
"aliases": [
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],
"status": "released"
}
],
"control_for": [],
"creation_timestamp": "2023-12-13T08:48:13.823250+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO1080XFGV/",
"accession": "IGVFDO1080XFGV",
"aliases": [
"igvf:donor_of_Jurkat"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
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},
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},
{
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},
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},
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},
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},
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},
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},
"submitted_files_timestamp": "2023-12-13T10:16:41.728005+00:00",
"summary": "CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus",
"targeted_genes": [
{
"@id": "/genes/ENSG00000108179/",
"geneid": "ENSG00000108179",
"name": "peptidylprolyl isomerase F",
"status": "released",
"symbol": "PPIF",
"synonyms": [
"rotamase F",
"CYP3",
"cyclophilin F",
"mitochondrial cyclophilin",
"peptidyl-prolyl cis-trans isomerase, mitochondrial",
"CypD",
"Cyp-D",
"cyclophilin 3",
"cyclophilin D",
"CyP-M",
"peptidyl-prolyl cis-trans isomerase F, mitochondrial",
"PPIase F"
]
}
],
"uuid": "1a5097e9-01f5-437a-8b88-12e5fd8acfa9"
}