{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS9602KUWY/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS9602KUWY",
"aliases": [
"jesse-engreitz:230423pPPIFEnformer-Jurkat-Amp_PPIF_promoter-BioRep1-FFrep2-BinC_AmpliconSequencing"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003661/",
"status": "released",
"term_name": "in vitro CRISPR screen using flow cytometry"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS9602KUWY](/measurement-sets/IGVFDS9602KUWY/) has sequence file(s) [IGVFFI5882IGRE](/sequence-files/IGVFFI5882IGRE/), [IGVFFI8232OWHT](/sequence-files/IGVFFI8232OWHT/), [IGVFFI5329IBLC](/sequence-files/IGVFFI5329IBLC/), [IGVFFI1128ZYQJ](/sequence-files/IGVFFI1128ZYQJ/), [IGVFFI3405PNFQ](/sequence-files/IGVFFI3405PNFQ/), [IGVFFI4191UFTU](/sequence-files/IGVFFI4191UFTU/), [IGVFFI0871FGNI](/sequence-files/IGVFFI0871FGNI/), [IGVFFI5734JNHI](/sequence-files/IGVFFI5734JNHI/), [IGVFFI8130BEQF](/sequence-files/IGVFFI8130BEQF/), [IGVFFI1026AHHD](/sequence-files/IGVFFI1026AHHD/), [IGVFFI6677TPJL](/sequence-files/IGVFFI6677TPJL/), [IGVFFI3304DZTO](/sequence-files/IGVFFI3304DZTO/), [IGVFFI5495MHPM](/sequence-files/IGVFFI5495MHPM/), [IGVFFI6286RNPB](/sequence-files/IGVFFI6286RNPB/), [IGVFFI2970VJJU](/sequence-files/IGVFFI2970VJJU/), [IGVFFI5258PSAA](/sequence-files/IGVFFI5258PSAA/), [IGVFFI8696XCTR](/sequence-files/IGVFFI8696XCTR/), [IGVFFI0783FYIC](/sequence-files/IGVFFI0783FYIC/), [IGVFFI4596FINT](/sequence-files/IGVFFI4596FINT/), [IGVFFI9788QEAX](/sequence-files/IGVFFI9788QEAX/), [IGVFFI1384TSZS](/sequence-files/IGVFFI1384TSZS/), [IGVFFI0866GQSO](/sequence-files/IGVFFI0866GQSO/), [IGVFFI1369OCZX](/sequence-files/IGVFFI1369OCZX/), [IGVFFI2121QSPF](/sequence-files/IGVFFI2121QSPF/), [IGVFFI9476WEFM](/sequence-files/IGVFFI9476WEFM/), [IGVFFI8320MRUY](/sequence-files/IGVFFI8320MRUY/), [IGVFFI3128QGRW](/sequence-files/IGVFFI3128QGRW/), [IGVFFI7514GFKB](/sequence-files/IGVFFI7514GFKB/), [IGVFFI1528LRQC](/sequence-files/IGVFFI1528LRQC/), [IGVFFI4065REIJ](/sequence-files/IGVFFI4065REIJ/), [IGVFFI9464LQKW](/sequence-files/IGVFFI9464LQKW/), [IGVFFI7772NRCD](/sequence-files/IGVFFI7772NRCD/), [IGVFFI9895YKNS](/sequence-files/IGVFFI9895YKNS/), [IGVFFI0694YQVE](/sequence-files/IGVFFI0694YQVE/), [IGVFFI1004TWHC](/sequence-files/IGVFFI1004TWHC/), [IGVFFI2187AISB](/sequence-files/IGVFFI2187AISB/), [IGVFFI2760VYON](/sequence-files/IGVFFI2760VYON/), [IGVFFI6659OWJC](/sequence-files/IGVFFI6659OWJC/), [IGVFFI1708AGYN](/sequence-files/IGVFFI1708AGYN/), [IGVFFI5688VEIR](/sequence-files/IGVFFI5688VEIR/), [IGVFFI0264YKXV](/sequence-files/IGVFFI0264YKXV/), [IGVFFI4924CSXX](/sequence-files/IGVFFI4924CSXX/), [IGVFFI1399SJEC](/sequence-files/IGVFFI1399SJEC/), [IGVFFI2014TLKE](/sequence-files/IGVFFI2014TLKE/), [IGVFFI4472QXKX](/sequence-files/IGVFFI4472QXKX/), [IGVFFI7697WYGU](/sequence-files/IGVFFI7697WYGU/), [IGVFFI6536TYTQ](/sequence-files/IGVFFI6536TYTQ/), [IGVFFI2422ZEDQ](/sequence-files/IGVFFI2422ZEDQ/) 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/IGVFDS9602KUWY/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS9602KUWY](/measurement-sets/IGVFDS9602KUWY/) has sequence file(s): [IGVFFI5882IGRE](/sequence-files/IGVFFI5882IGRE/), [IGVFFI8232OWHT](/sequence-files/IGVFFI8232OWHT/), [IGVFFI5329IBLC](/sequence-files/IGVFFI5329IBLC/), [IGVFFI1128ZYQJ](/sequence-files/IGVFFI1128ZYQJ/), [IGVFFI3405PNFQ](/sequence-files/IGVFFI3405PNFQ/), [IGVFFI4191UFTU](/sequence-files/IGVFFI4191UFTU/), [IGVFFI0871FGNI](/sequence-files/IGVFFI0871FGNI/), [IGVFFI5734JNHI](/sequence-files/IGVFFI5734JNHI/), [IGVFFI8130BEQF](/sequence-files/IGVFFI8130BEQF/), [IGVFFI1026AHHD](/sequence-files/IGVFFI1026AHHD/), [IGVFFI6677TPJL](/sequence-files/IGVFFI6677TPJL/), [IGVFFI3304DZTO](/sequence-files/IGVFFI3304DZTO/), [IGVFFI5495MHPM](/sequence-files/IGVFFI5495MHPM/), [IGVFFI6286RNPB](/sequence-files/IGVFFI6286RNPB/), [IGVFFI2970VJJU](/sequence-files/IGVFFI2970VJJU/), [IGVFFI5258PSAA](/sequence-files/IGVFFI5258PSAA/), [IGVFFI8696XCTR](/sequence-files/IGVFFI8696XCTR/), [IGVFFI0783FYIC](/sequence-files/IGVFFI0783FYIC/), [IGVFFI4596FINT](/sequence-files/IGVFFI4596FINT/), [IGVFFI9788QEAX](/sequence-files/IGVFFI9788QEAX/), [IGVFFI1384TSZS](/sequence-files/IGVFFI1384TSZS/), [IGVFFI0866GQSO](/sequence-files/IGVFFI0866GQSO/), [IGVFFI1369OCZX](/sequence-files/IGVFFI1369OCZX/), [IGVFFI2121QSPF](/sequence-files/IGVFFI2121QSPF/), [IGVFFI9476WEFM](/sequence-files/IGVFFI9476WEFM/), [IGVFFI8320MRUY](/sequence-files/IGVFFI8320MRUY/), [IGVFFI3128QGRW](/sequence-files/IGVFFI3128QGRW/), [IGVFFI7514GFKB](/sequence-files/IGVFFI7514GFKB/), [IGVFFI1528LRQC](/sequence-files/IGVFFI1528LRQC/), [IGVFFI4065REIJ](/sequence-files/IGVFFI4065REIJ/), [IGVFFI9464LQKW](/sequence-files/IGVFFI9464LQKW/), [IGVFFI7772NRCD](/sequence-files/IGVFFI7772NRCD/), [IGVFFI9895YKNS](/sequence-files/IGVFFI9895YKNS/), [IGVFFI0694YQVE](/sequence-files/IGVFFI0694YQVE/), [IGVFFI1004TWHC](/sequence-files/IGVFFI1004TWHC/), [IGVFFI2187AISB](/sequence-files/IGVFFI2187AISB/), [IGVFFI2760VYON](/sequence-files/IGVFFI2760VYON/), [IGVFFI6659OWJC](/sequence-files/IGVFFI6659OWJC/), [IGVFFI1708AGYN](/sequence-files/IGVFFI1708AGYN/), [IGVFFI5688VEIR](/sequence-files/IGVFFI5688VEIR/), [IGVFFI0264YKXV](/sequence-files/IGVFFI0264YKXV/), [IGVFFI4924CSXX](/sequence-files/IGVFFI4924CSXX/), [IGVFFI1399SJEC](/sequence-files/IGVFFI1399SJEC/), [IGVFFI2014TLKE](/sequence-files/IGVFFI2014TLKE/), [IGVFFI4472QXKX](/sequence-files/IGVFFI4472QXKX/), [IGVFFI7697WYGU](/sequence-files/IGVFFI7697WYGU/), [IGVFFI6536TYTQ](/sequence-files/IGVFFI6536TYTQ/), [IGVFFI2422ZEDQ](/sequence-files/IGVFFI2422ZEDQ/) 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/IGVFDS9602KUWY/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM4036WXDC](/in-vitro-systems/IGVFSM4036WXDC/) 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/IGVFSM4036WXDC/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS9602KUWY](/measurement-sets/IGVFDS9602KUWY/) 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/IGVFDS9602KUWY/"
}
]
},
"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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],
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}
],
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"creation_timestamp": "2023-12-13T08:48:05.249274+00:00",
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{
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"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
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},
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},
"submitted_files_timestamp": "2023-12-13T09:36:47.504753+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": "9e42f95e-f3b2-4e54-9d39-e711b508d9b4"
}