{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS7957LQTQ/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS7957LQTQ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep4-BinD_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 [IGVFDS7957LQTQ](/measurement-sets/IGVFDS7957LQTQ/) has sequence file(s) [IGVFFI5250XHZV](/sequence-files/IGVFFI5250XHZV/), [IGVFFI1343UKOE](/sequence-files/IGVFFI1343UKOE/), [IGVFFI6525DCFK](/sequence-files/IGVFFI6525DCFK/), [IGVFFI8016HGSP](/sequence-files/IGVFFI8016HGSP/), [IGVFFI2825HXWK](/sequence-files/IGVFFI2825HXWK/), [IGVFFI2964YVSZ](/sequence-files/IGVFFI2964YVSZ/), [IGVFFI6813RMTV](/sequence-files/IGVFFI6813RMTV/), [IGVFFI6730SZUZ](/sequence-files/IGVFFI6730SZUZ/), [IGVFFI5441BUOJ](/sequence-files/IGVFFI5441BUOJ/), [IGVFFI6432MAAU](/sequence-files/IGVFFI6432MAAU/), [IGVFFI0365XTNS](/sequence-files/IGVFFI0365XTNS/), [IGVFFI5210HAXA](/sequence-files/IGVFFI5210HAXA/), [IGVFFI3682NHGF](/sequence-files/IGVFFI3682NHGF/), [IGVFFI8167UAGG](/sequence-files/IGVFFI8167UAGG/), [IGVFFI3081LWKM](/sequence-files/IGVFFI3081LWKM/), [IGVFFI8395UIDC](/sequence-files/IGVFFI8395UIDC/), [IGVFFI0621SJTS](/sequence-files/IGVFFI0621SJTS/), [IGVFFI8426MXRP](/sequence-files/IGVFFI8426MXRP/), [IGVFFI4514IYSU](/sequence-files/IGVFFI4514IYSU/), [IGVFFI8051WWDF](/sequence-files/IGVFFI8051WWDF/), [IGVFFI1625ULVT](/sequence-files/IGVFFI1625ULVT/), [IGVFFI2676SQNH](/sequence-files/IGVFFI2676SQNH/), [IGVFFI9985CTHV](/sequence-files/IGVFFI9985CTHV/), [IGVFFI1629KRVQ](/sequence-files/IGVFFI1629KRVQ/), [IGVFFI6445IWYZ](/sequence-files/IGVFFI6445IWYZ/), [IGVFFI3459RDVI](/sequence-files/IGVFFI3459RDVI/), [IGVFFI4493DGXX](/sequence-files/IGVFFI4493DGXX/), [IGVFFI5454DRRS](/sequence-files/IGVFFI5454DRRS/), [IGVFFI1291CVRA](/sequence-files/IGVFFI1291CVRA/), [IGVFFI9568UXQZ](/sequence-files/IGVFFI9568UXQZ/), [IGVFFI0381NDTC](/sequence-files/IGVFFI0381NDTC/), [IGVFFI2001PIIL](/sequence-files/IGVFFI2001PIIL/), [IGVFFI6829LQBW](/sequence-files/IGVFFI6829LQBW/), [IGVFFI9916DGNB](/sequence-files/IGVFFI9916DGNB/), [IGVFFI6472RNEZ](/sequence-files/IGVFFI6472RNEZ/), [IGVFFI2477UQSJ](/sequence-files/IGVFFI2477UQSJ/), [IGVFFI4780FERQ](/sequence-files/IGVFFI4780FERQ/), [IGVFFI4464SXAX](/sequence-files/IGVFFI4464SXAX/), [IGVFFI1383FMEI](/sequence-files/IGVFFI1383FMEI/), [IGVFFI1736DMZU](/sequence-files/IGVFFI1736DMZU/), [IGVFFI7103JDWM](/sequence-files/IGVFFI7103JDWM/), [IGVFFI5256DTNJ](/sequence-files/IGVFFI5256DTNJ/), [IGVFFI1692QETB](/sequence-files/IGVFFI1692QETB/), [IGVFFI3538BZDC](/sequence-files/IGVFFI3538BZDC/), [IGVFFI5236MDXH](/sequence-files/IGVFFI5236MDXH/), [IGVFFI5399PTVY](/sequence-files/IGVFFI5399PTVY/), [IGVFFI8851IIIR](/sequence-files/IGVFFI8851IIIR/), [IGVFFI7365ZWLN](/sequence-files/IGVFFI7365ZWLN/) 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/IGVFDS7957LQTQ/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS7957LQTQ](/measurement-sets/IGVFDS7957LQTQ/) has sequence file(s): [IGVFFI5250XHZV](/sequence-files/IGVFFI5250XHZV/), [IGVFFI1343UKOE](/sequence-files/IGVFFI1343UKOE/), [IGVFFI6525DCFK](/sequence-files/IGVFFI6525DCFK/), [IGVFFI8016HGSP](/sequence-files/IGVFFI8016HGSP/), [IGVFFI2825HXWK](/sequence-files/IGVFFI2825HXWK/), [IGVFFI2964YVSZ](/sequence-files/IGVFFI2964YVSZ/), [IGVFFI6813RMTV](/sequence-files/IGVFFI6813RMTV/), [IGVFFI6730SZUZ](/sequence-files/IGVFFI6730SZUZ/), [IGVFFI5441BUOJ](/sequence-files/IGVFFI5441BUOJ/), [IGVFFI6432MAAU](/sequence-files/IGVFFI6432MAAU/), [IGVFFI0365XTNS](/sequence-files/IGVFFI0365XTNS/), [IGVFFI5210HAXA](/sequence-files/IGVFFI5210HAXA/), [IGVFFI3682NHGF](/sequence-files/IGVFFI3682NHGF/), [IGVFFI8167UAGG](/sequence-files/IGVFFI8167UAGG/), [IGVFFI3081LWKM](/sequence-files/IGVFFI3081LWKM/), [IGVFFI8395UIDC](/sequence-files/IGVFFI8395UIDC/), [IGVFFI0621SJTS](/sequence-files/IGVFFI0621SJTS/), [IGVFFI8426MXRP](/sequence-files/IGVFFI8426MXRP/), [IGVFFI4514IYSU](/sequence-files/IGVFFI4514IYSU/), [IGVFFI8051WWDF](/sequence-files/IGVFFI8051WWDF/), [IGVFFI1625ULVT](/sequence-files/IGVFFI1625ULVT/), [IGVFFI2676SQNH](/sequence-files/IGVFFI2676SQNH/), [IGVFFI9985CTHV](/sequence-files/IGVFFI9985CTHV/), [IGVFFI1629KRVQ](/sequence-files/IGVFFI1629KRVQ/), [IGVFFI6445IWYZ](/sequence-files/IGVFFI6445IWYZ/), [IGVFFI3459RDVI](/sequence-files/IGVFFI3459RDVI/), [IGVFFI4493DGXX](/sequence-files/IGVFFI4493DGXX/), [IGVFFI5454DRRS](/sequence-files/IGVFFI5454DRRS/), [IGVFFI1291CVRA](/sequence-files/IGVFFI1291CVRA/), [IGVFFI9568UXQZ](/sequence-files/IGVFFI9568UXQZ/), [IGVFFI0381NDTC](/sequence-files/IGVFFI0381NDTC/), [IGVFFI2001PIIL](/sequence-files/IGVFFI2001PIIL/), [IGVFFI6829LQBW](/sequence-files/IGVFFI6829LQBW/), [IGVFFI9916DGNB](/sequence-files/IGVFFI9916DGNB/), [IGVFFI6472RNEZ](/sequence-files/IGVFFI6472RNEZ/), [IGVFFI2477UQSJ](/sequence-files/IGVFFI2477UQSJ/), [IGVFFI4780FERQ](/sequence-files/IGVFFI4780FERQ/), [IGVFFI4464SXAX](/sequence-files/IGVFFI4464SXAX/), [IGVFFI1383FMEI](/sequence-files/IGVFFI1383FMEI/), [IGVFFI1736DMZU](/sequence-files/IGVFFI1736DMZU/), [IGVFFI7103JDWM](/sequence-files/IGVFFI7103JDWM/), [IGVFFI5256DTNJ](/sequence-files/IGVFFI5256DTNJ/), [IGVFFI1692QETB](/sequence-files/IGVFFI1692QETB/), [IGVFFI3538BZDC](/sequence-files/IGVFFI3538BZDC/), [IGVFFI5236MDXH](/sequence-files/IGVFFI5236MDXH/), [IGVFFI5399PTVY](/sequence-files/IGVFFI5399PTVY/), [IGVFFI8851IIIR](/sequence-files/IGVFFI8851IIIR/), [IGVFFI7365ZWLN](/sequence-files/IGVFFI7365ZWLN/) 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/IGVFDS7957LQTQ/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM4346QVBF](/in-vitro-systems/IGVFSM4346QVBF/) 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/IGVFSM4346QVBF/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS7957LQTQ](/measurement-sets/IGVFDS7957LQTQ/) 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/IGVFDS7957LQTQ/"
}
]
},
"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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"accession": "IGVFDO7359LVPI",
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],
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"status": "released",
"taxa": "Homo sapiens"
}
],
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"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T09:16:01.377007+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": "05ec0cfe-be74-4644-a933-d6fb77f5f559"
}