{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS8163FWZM/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS8163FWZM",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep1-FFrep4-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 [IGVFDS8163FWZM](/measurement-sets/IGVFDS8163FWZM/) has sequence file(s) [IGVFFI6191YWEB](/sequence-files/IGVFFI6191YWEB/), [IGVFFI9614OHEW](/sequence-files/IGVFFI9614OHEW/), [IGVFFI9993XBEZ](/sequence-files/IGVFFI9993XBEZ/), [IGVFFI2587QXJO](/sequence-files/IGVFFI2587QXJO/), [IGVFFI4856TGVQ](/sequence-files/IGVFFI4856TGVQ/), [IGVFFI3781CGOD](/sequence-files/IGVFFI3781CGOD/), [IGVFFI3676XCIB](/sequence-files/IGVFFI3676XCIB/), [IGVFFI6657FXHG](/sequence-files/IGVFFI6657FXHG/), [IGVFFI4926HNHJ](/sequence-files/IGVFFI4926HNHJ/), [IGVFFI4811RTOH](/sequence-files/IGVFFI4811RTOH/), [IGVFFI9807JFXF](/sequence-files/IGVFFI9807JFXF/), [IGVFFI4484EVHV](/sequence-files/IGVFFI4484EVHV/), [IGVFFI9816VQPK](/sequence-files/IGVFFI9816VQPK/), [IGVFFI5564YQLO](/sequence-files/IGVFFI5564YQLO/), [IGVFFI5666BZQF](/sequence-files/IGVFFI5666BZQF/), [IGVFFI9340YFAK](/sequence-files/IGVFFI9340YFAK/), [IGVFFI3989EWFI](/sequence-files/IGVFFI3989EWFI/), [IGVFFI3450UJXU](/sequence-files/IGVFFI3450UJXU/), [IGVFFI6520JMFT](/sequence-files/IGVFFI6520JMFT/), [IGVFFI3452FLKR](/sequence-files/IGVFFI3452FLKR/), [IGVFFI7097JLGF](/sequence-files/IGVFFI7097JLGF/), [IGVFFI4302LGWZ](/sequence-files/IGVFFI4302LGWZ/), [IGVFFI1886HWNT](/sequence-files/IGVFFI1886HWNT/), [IGVFFI1957CRJW](/sequence-files/IGVFFI1957CRJW/), [IGVFFI2658GABT](/sequence-files/IGVFFI2658GABT/), [IGVFFI0072VORE](/sequence-files/IGVFFI0072VORE/), [IGVFFI9624XLDJ](/sequence-files/IGVFFI9624XLDJ/), [IGVFFI0626RBLC](/sequence-files/IGVFFI0626RBLC/), [IGVFFI3809SELT](/sequence-files/IGVFFI3809SELT/), [IGVFFI2074NLOF](/sequence-files/IGVFFI2074NLOF/), [IGVFFI7610YZLV](/sequence-files/IGVFFI7610YZLV/), [IGVFFI1701KSKL](/sequence-files/IGVFFI1701KSKL/), [IGVFFI2399KNOE](/sequence-files/IGVFFI2399KNOE/), [IGVFFI5877FEEZ](/sequence-files/IGVFFI5877FEEZ/), [IGVFFI8440PEMF](/sequence-files/IGVFFI8440PEMF/), [IGVFFI7607IDEX](/sequence-files/IGVFFI7607IDEX/), [IGVFFI9506QREY](/sequence-files/IGVFFI9506QREY/), [IGVFFI6920QEXY](/sequence-files/IGVFFI6920QEXY/), [IGVFFI9168DQTX](/sequence-files/IGVFFI9168DQTX/), [IGVFFI4408EQHP](/sequence-files/IGVFFI4408EQHP/), [IGVFFI3664DMIN](/sequence-files/IGVFFI3664DMIN/), [IGVFFI7790AUSA](/sequence-files/IGVFFI7790AUSA/), [IGVFFI8957LHEW](/sequence-files/IGVFFI8957LHEW/), [IGVFFI6261FRXD](/sequence-files/IGVFFI6261FRXD/), [IGVFFI5148UCXI](/sequence-files/IGVFFI5148UCXI/), [IGVFFI1417RLZE](/sequence-files/IGVFFI1417RLZE/), [IGVFFI3993ACUY](/sequence-files/IGVFFI3993ACUY/), [IGVFFI5457QSDQ](/sequence-files/IGVFFI5457QSDQ/) 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/IGVFDS8163FWZM/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS8163FWZM](/measurement-sets/IGVFDS8163FWZM/) has sequence file(s): [IGVFFI6191YWEB](/sequence-files/IGVFFI6191YWEB/), [IGVFFI9614OHEW](/sequence-files/IGVFFI9614OHEW/), [IGVFFI9993XBEZ](/sequence-files/IGVFFI9993XBEZ/), [IGVFFI2587QXJO](/sequence-files/IGVFFI2587QXJO/), [IGVFFI4856TGVQ](/sequence-files/IGVFFI4856TGVQ/), [IGVFFI3781CGOD](/sequence-files/IGVFFI3781CGOD/), [IGVFFI3676XCIB](/sequence-files/IGVFFI3676XCIB/), [IGVFFI6657FXHG](/sequence-files/IGVFFI6657FXHG/), [IGVFFI4926HNHJ](/sequence-files/IGVFFI4926HNHJ/), [IGVFFI4811RTOH](/sequence-files/IGVFFI4811RTOH/), [IGVFFI9807JFXF](/sequence-files/IGVFFI9807JFXF/), [IGVFFI4484EVHV](/sequence-files/IGVFFI4484EVHV/), [IGVFFI9816VQPK](/sequence-files/IGVFFI9816VQPK/), [IGVFFI5564YQLO](/sequence-files/IGVFFI5564YQLO/), [IGVFFI5666BZQF](/sequence-files/IGVFFI5666BZQF/), [IGVFFI9340YFAK](/sequence-files/IGVFFI9340YFAK/), [IGVFFI3989EWFI](/sequence-files/IGVFFI3989EWFI/), [IGVFFI3450UJXU](/sequence-files/IGVFFI3450UJXU/), [IGVFFI6520JMFT](/sequence-files/IGVFFI6520JMFT/), [IGVFFI3452FLKR](/sequence-files/IGVFFI3452FLKR/), [IGVFFI7097JLGF](/sequence-files/IGVFFI7097JLGF/), [IGVFFI4302LGWZ](/sequence-files/IGVFFI4302LGWZ/), [IGVFFI1886HWNT](/sequence-files/IGVFFI1886HWNT/), [IGVFFI1957CRJW](/sequence-files/IGVFFI1957CRJW/), [IGVFFI2658GABT](/sequence-files/IGVFFI2658GABT/), [IGVFFI0072VORE](/sequence-files/IGVFFI0072VORE/), [IGVFFI9624XLDJ](/sequence-files/IGVFFI9624XLDJ/), [IGVFFI0626RBLC](/sequence-files/IGVFFI0626RBLC/), [IGVFFI3809SELT](/sequence-files/IGVFFI3809SELT/), [IGVFFI2074NLOF](/sequence-files/IGVFFI2074NLOF/), [IGVFFI7610YZLV](/sequence-files/IGVFFI7610YZLV/), [IGVFFI1701KSKL](/sequence-files/IGVFFI1701KSKL/), [IGVFFI2399KNOE](/sequence-files/IGVFFI2399KNOE/), [IGVFFI5877FEEZ](/sequence-files/IGVFFI5877FEEZ/), [IGVFFI8440PEMF](/sequence-files/IGVFFI8440PEMF/), [IGVFFI7607IDEX](/sequence-files/IGVFFI7607IDEX/), [IGVFFI9506QREY](/sequence-files/IGVFFI9506QREY/), [IGVFFI6920QEXY](/sequence-files/IGVFFI6920QEXY/), [IGVFFI9168DQTX](/sequence-files/IGVFFI9168DQTX/), [IGVFFI4408EQHP](/sequence-files/IGVFFI4408EQHP/), [IGVFFI3664DMIN](/sequence-files/IGVFFI3664DMIN/), [IGVFFI7790AUSA](/sequence-files/IGVFFI7790AUSA/), [IGVFFI8957LHEW](/sequence-files/IGVFFI8957LHEW/), [IGVFFI6261FRXD](/sequence-files/IGVFFI6261FRXD/), [IGVFFI5148UCXI](/sequence-files/IGVFFI5148UCXI/), [IGVFFI1417RLZE](/sequence-files/IGVFFI1417RLZE/), [IGVFFI3993ACUY](/sequence-files/IGVFFI3993ACUY/), [IGVFFI5457QSDQ](/sequence-files/IGVFFI5457QSDQ/) 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/IGVFDS8163FWZM/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM1008GZTD](/in-vitro-systems/IGVFSM1008GZTD/) 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/IGVFSM1008GZTD/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS8163FWZM](/measurement-sets/IGVFDS8163FWZM/) 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/IGVFDS8163FWZM/"
}
]
},
"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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],
"status": "released"
}
],
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"creation_timestamp": "2023-12-13T08:01:42.377066+00:00",
"donors": [
{
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"accession": "IGVFDO7359LVPI",
"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
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"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T08:42:20.296298+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": "23e7b10d-e34a-492d-9a7a-2b78216a74ef"
}