{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS6252SSYB/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS6252SSYB",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep3-BinB_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 [IGVFSM9842JQYY](/in-vitro-systems/IGVFSM9842JQYY/) 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/IGVFSM9842JQYY/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS6252SSYB](/measurement-sets/IGVFDS6252SSYB/) has sequence file(s) [IGVFFI4119NLGY](/sequence-files/IGVFFI4119NLGY/), [IGVFFI4819PRPQ](/sequence-files/IGVFFI4819PRPQ/), [IGVFFI7458MEAW](/sequence-files/IGVFFI7458MEAW/), [IGVFFI0620MLUO](/sequence-files/IGVFFI0620MLUO/), [IGVFFI2885XKFF](/sequence-files/IGVFFI2885XKFF/), [IGVFFI2781GRDZ](/sequence-files/IGVFFI2781GRDZ/), [IGVFFI3629RVXH](/sequence-files/IGVFFI3629RVXH/), [IGVFFI0516LTGK](/sequence-files/IGVFFI0516LTGK/), [IGVFFI7040PYNV](/sequence-files/IGVFFI7040PYNV/), [IGVFFI1135HIYC](/sequence-files/IGVFFI1135HIYC/), [IGVFFI2425TPAO](/sequence-files/IGVFFI2425TPAO/), [IGVFFI1309VYEE](/sequence-files/IGVFFI1309VYEE/), [IGVFFI7315KNCV](/sequence-files/IGVFFI7315KNCV/), [IGVFFI7170MBKO](/sequence-files/IGVFFI7170MBKO/), [IGVFFI2374RFVM](/sequence-files/IGVFFI2374RFVM/), [IGVFFI3105UTFG](/sequence-files/IGVFFI3105UTFG/), [IGVFFI9237GHIG](/sequence-files/IGVFFI9237GHIG/), [IGVFFI1005IMLJ](/sequence-files/IGVFFI1005IMLJ/), [IGVFFI6134KUEL](/sequence-files/IGVFFI6134KUEL/), [IGVFFI6311MQAS](/sequence-files/IGVFFI6311MQAS/), [IGVFFI2759QJMR](/sequence-files/IGVFFI2759QJMR/), [IGVFFI6207JOCM](/sequence-files/IGVFFI6207JOCM/), [IGVFFI0560EGTK](/sequence-files/IGVFFI0560EGTK/), [IGVFFI1956EMDR](/sequence-files/IGVFFI1956EMDR/), [IGVFFI7138EHEK](/sequence-files/IGVFFI7138EHEK/), [IGVFFI0626TFZR](/sequence-files/IGVFFI0626TFZR/), [IGVFFI2392BCNA](/sequence-files/IGVFFI2392BCNA/), [IGVFFI7270AVMN](/sequence-files/IGVFFI7270AVMN/), [IGVFFI5120EZLI](/sequence-files/IGVFFI5120EZLI/), [IGVFFI4228ACMY](/sequence-files/IGVFFI4228ACMY/), [IGVFFI0645UVRE](/sequence-files/IGVFFI0645UVRE/), [IGVFFI5056ELZJ](/sequence-files/IGVFFI5056ELZJ/), [IGVFFI9413CAFZ](/sequence-files/IGVFFI9413CAFZ/), [IGVFFI0916OVID](/sequence-files/IGVFFI0916OVID/), [IGVFFI1435TNDF](/sequence-files/IGVFFI1435TNDF/), [IGVFFI1343IEBR](/sequence-files/IGVFFI1343IEBR/), [IGVFFI6215JNVB](/sequence-files/IGVFFI6215JNVB/), [IGVFFI3057WAZH](/sequence-files/IGVFFI3057WAZH/), [IGVFFI9771NUIY](/sequence-files/IGVFFI9771NUIY/), [IGVFFI0030GWRU](/sequence-files/IGVFFI0030GWRU/), [IGVFFI8005ARBR](/sequence-files/IGVFFI8005ARBR/), [IGVFFI0445GPMC](/sequence-files/IGVFFI0445GPMC/), [IGVFFI4111CFLO](/sequence-files/IGVFFI4111CFLO/), [IGVFFI4192YYIB](/sequence-files/IGVFFI4192YYIB/), [IGVFFI4305XFTA](/sequence-files/IGVFFI4305XFTA/), [IGVFFI1033GSDC](/sequence-files/IGVFFI1033GSDC/), [IGVFFI0197CHRJ](/sequence-files/IGVFFI0197CHRJ/), [IGVFFI1954SOJZ](/sequence-files/IGVFFI1954SOJZ/) 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/IGVFDS6252SSYB/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS6252SSYB](/measurement-sets/IGVFDS6252SSYB/) has sequence file(s): [IGVFFI4119NLGY](/sequence-files/IGVFFI4119NLGY/), [IGVFFI4819PRPQ](/sequence-files/IGVFFI4819PRPQ/), [IGVFFI7458MEAW](/sequence-files/IGVFFI7458MEAW/), [IGVFFI0620MLUO](/sequence-files/IGVFFI0620MLUO/), [IGVFFI2885XKFF](/sequence-files/IGVFFI2885XKFF/), [IGVFFI2781GRDZ](/sequence-files/IGVFFI2781GRDZ/), [IGVFFI3629RVXH](/sequence-files/IGVFFI3629RVXH/), [IGVFFI0516LTGK](/sequence-files/IGVFFI0516LTGK/), [IGVFFI7040PYNV](/sequence-files/IGVFFI7040PYNV/), [IGVFFI1135HIYC](/sequence-files/IGVFFI1135HIYC/), [IGVFFI2425TPAO](/sequence-files/IGVFFI2425TPAO/), [IGVFFI1309VYEE](/sequence-files/IGVFFI1309VYEE/), [IGVFFI7315KNCV](/sequence-files/IGVFFI7315KNCV/), [IGVFFI7170MBKO](/sequence-files/IGVFFI7170MBKO/), [IGVFFI2374RFVM](/sequence-files/IGVFFI2374RFVM/), [IGVFFI3105UTFG](/sequence-files/IGVFFI3105UTFG/), [IGVFFI9237GHIG](/sequence-files/IGVFFI9237GHIG/), [IGVFFI1005IMLJ](/sequence-files/IGVFFI1005IMLJ/), [IGVFFI6134KUEL](/sequence-files/IGVFFI6134KUEL/), [IGVFFI6311MQAS](/sequence-files/IGVFFI6311MQAS/), [IGVFFI2759QJMR](/sequence-files/IGVFFI2759QJMR/), [IGVFFI6207JOCM](/sequence-files/IGVFFI6207JOCM/), [IGVFFI0560EGTK](/sequence-files/IGVFFI0560EGTK/), [IGVFFI1956EMDR](/sequence-files/IGVFFI1956EMDR/), [IGVFFI7138EHEK](/sequence-files/IGVFFI7138EHEK/), [IGVFFI0626TFZR](/sequence-files/IGVFFI0626TFZR/), [IGVFFI2392BCNA](/sequence-files/IGVFFI2392BCNA/), [IGVFFI7270AVMN](/sequence-files/IGVFFI7270AVMN/), [IGVFFI5120EZLI](/sequence-files/IGVFFI5120EZLI/), [IGVFFI4228ACMY](/sequence-files/IGVFFI4228ACMY/), [IGVFFI0645UVRE](/sequence-files/IGVFFI0645UVRE/), [IGVFFI5056ELZJ](/sequence-files/IGVFFI5056ELZJ/), [IGVFFI9413CAFZ](/sequence-files/IGVFFI9413CAFZ/), [IGVFFI0916OVID](/sequence-files/IGVFFI0916OVID/), [IGVFFI1435TNDF](/sequence-files/IGVFFI1435TNDF/), [IGVFFI1343IEBR](/sequence-files/IGVFFI1343IEBR/), [IGVFFI6215JNVB](/sequence-files/IGVFFI6215JNVB/), [IGVFFI3057WAZH](/sequence-files/IGVFFI3057WAZH/), [IGVFFI9771NUIY](/sequence-files/IGVFFI9771NUIY/), [IGVFFI0030GWRU](/sequence-files/IGVFFI0030GWRU/), [IGVFFI8005ARBR](/sequence-files/IGVFFI8005ARBR/), [IGVFFI0445GPMC](/sequence-files/IGVFFI0445GPMC/), [IGVFFI4111CFLO](/sequence-files/IGVFFI4111CFLO/), [IGVFFI4192YYIB](/sequence-files/IGVFFI4192YYIB/), [IGVFFI4305XFTA](/sequence-files/IGVFFI4305XFTA/), [IGVFFI1033GSDC](/sequence-files/IGVFFI1033GSDC/), [IGVFFI0197CHRJ](/sequence-files/IGVFFI0197CHRJ/), [IGVFFI1954SOJZ](/sequence-files/IGVFFI1954SOJZ/) 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/IGVFDS6252SSYB/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS6252SSYB](/measurement-sets/IGVFDS6252SSYB/) 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/IGVFDS6252SSYB/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization",
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"@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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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
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"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T09:07:14.988733+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": "271fff64-e620-4bb4-b713-1a49b16b6ead"
}