{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS7378QBUS/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS7378QBUS",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep1-FFrep2-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 [IGVFSM3068WOLM](/in-vitro-systems/IGVFSM3068WOLM/) 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/IGVFSM3068WOLM/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS7378QBUS](/measurement-sets/IGVFDS7378QBUS/) has sequence file(s) [IGVFFI5360BAXC](/sequence-files/IGVFFI5360BAXC/), [IGVFFI3685RHYH](/sequence-files/IGVFFI3685RHYH/), [IGVFFI9267IJCA](/sequence-files/IGVFFI9267IJCA/), [IGVFFI2081WAWT](/sequence-files/IGVFFI2081WAWT/), [IGVFFI7988OJTW](/sequence-files/IGVFFI7988OJTW/), [IGVFFI1247CTXE](/sequence-files/IGVFFI1247CTXE/), [IGVFFI3698ONCL](/sequence-files/IGVFFI3698ONCL/), [IGVFFI3184XGRQ](/sequence-files/IGVFFI3184XGRQ/), [IGVFFI5143ASFN](/sequence-files/IGVFFI5143ASFN/), [IGVFFI2620GXZT](/sequence-files/IGVFFI2620GXZT/), [IGVFFI7387NLGV](/sequence-files/IGVFFI7387NLGV/), [IGVFFI2050DMEZ](/sequence-files/IGVFFI2050DMEZ/), [IGVFFI7554QBFB](/sequence-files/IGVFFI7554QBFB/), [IGVFFI6918JUFX](/sequence-files/IGVFFI6918JUFX/), [IGVFFI6543HXEZ](/sequence-files/IGVFFI6543HXEZ/), [IGVFFI5038EGNV](/sequence-files/IGVFFI5038EGNV/), [IGVFFI8167GTDR](/sequence-files/IGVFFI8167GTDR/), [IGVFFI0147UHER](/sequence-files/IGVFFI0147UHER/), [IGVFFI0349GQUV](/sequence-files/IGVFFI0349GQUV/), [IGVFFI3956EYUL](/sequence-files/IGVFFI3956EYUL/), [IGVFFI8887IXYI](/sequence-files/IGVFFI8887IXYI/), [IGVFFI1677OISD](/sequence-files/IGVFFI1677OISD/), [IGVFFI5203GEWH](/sequence-files/IGVFFI5203GEWH/), [IGVFFI9359DPME](/sequence-files/IGVFFI9359DPME/), [IGVFFI0825KMZO](/sequence-files/IGVFFI0825KMZO/), [IGVFFI0771XGBN](/sequence-files/IGVFFI0771XGBN/), [IGVFFI1870FBGA](/sequence-files/IGVFFI1870FBGA/), [IGVFFI1744AVXC](/sequence-files/IGVFFI1744AVXC/), [IGVFFI5070HSEG](/sequence-files/IGVFFI5070HSEG/), [IGVFFI5824BTSG](/sequence-files/IGVFFI5824BTSG/), [IGVFFI1190ZXKK](/sequence-files/IGVFFI1190ZXKK/), [IGVFFI2367JHST](/sequence-files/IGVFFI2367JHST/), [IGVFFI3535HXAP](/sequence-files/IGVFFI3535HXAP/), [IGVFFI6765QZSM](/sequence-files/IGVFFI6765QZSM/), [IGVFFI8421PLYI](/sequence-files/IGVFFI8421PLYI/), [IGVFFI1017QKKQ](/sequence-files/IGVFFI1017QKKQ/), [IGVFFI6285ILUX](/sequence-files/IGVFFI6285ILUX/), [IGVFFI5498TYRV](/sequence-files/IGVFFI5498TYRV/), [IGVFFI3105NPCJ](/sequence-files/IGVFFI3105NPCJ/), [IGVFFI5732CDSO](/sequence-files/IGVFFI5732CDSO/), [IGVFFI6700DMWS](/sequence-files/IGVFFI6700DMWS/), [IGVFFI7406XZOP](/sequence-files/IGVFFI7406XZOP/), [IGVFFI4173YXPL](/sequence-files/IGVFFI4173YXPL/), [IGVFFI8403BEFW](/sequence-files/IGVFFI8403BEFW/), [IGVFFI2301ERHJ](/sequence-files/IGVFFI2301ERHJ/), [IGVFFI0872NGUU](/sequence-files/IGVFFI0872NGUU/), [IGVFFI0926TEIU](/sequence-files/IGVFFI0926TEIU/), [IGVFFI3597BDBH](/sequence-files/IGVFFI3597BDBH/) 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/IGVFDS7378QBUS/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS7378QBUS](/measurement-sets/IGVFDS7378QBUS/) has sequence file(s): [IGVFFI5360BAXC](/sequence-files/IGVFFI5360BAXC/), [IGVFFI3685RHYH](/sequence-files/IGVFFI3685RHYH/), [IGVFFI9267IJCA](/sequence-files/IGVFFI9267IJCA/), [IGVFFI2081WAWT](/sequence-files/IGVFFI2081WAWT/), [IGVFFI7988OJTW](/sequence-files/IGVFFI7988OJTW/), [IGVFFI1247CTXE](/sequence-files/IGVFFI1247CTXE/), [IGVFFI3698ONCL](/sequence-files/IGVFFI3698ONCL/), [IGVFFI3184XGRQ](/sequence-files/IGVFFI3184XGRQ/), [IGVFFI5143ASFN](/sequence-files/IGVFFI5143ASFN/), [IGVFFI2620GXZT](/sequence-files/IGVFFI2620GXZT/), [IGVFFI7387NLGV](/sequence-files/IGVFFI7387NLGV/), [IGVFFI2050DMEZ](/sequence-files/IGVFFI2050DMEZ/), [IGVFFI7554QBFB](/sequence-files/IGVFFI7554QBFB/), [IGVFFI6918JUFX](/sequence-files/IGVFFI6918JUFX/), [IGVFFI6543HXEZ](/sequence-files/IGVFFI6543HXEZ/), [IGVFFI5038EGNV](/sequence-files/IGVFFI5038EGNV/), [IGVFFI8167GTDR](/sequence-files/IGVFFI8167GTDR/), [IGVFFI0147UHER](/sequence-files/IGVFFI0147UHER/), [IGVFFI0349GQUV](/sequence-files/IGVFFI0349GQUV/), [IGVFFI3956EYUL](/sequence-files/IGVFFI3956EYUL/), [IGVFFI8887IXYI](/sequence-files/IGVFFI8887IXYI/), [IGVFFI1677OISD](/sequence-files/IGVFFI1677OISD/), [IGVFFI5203GEWH](/sequence-files/IGVFFI5203GEWH/), [IGVFFI9359DPME](/sequence-files/IGVFFI9359DPME/), [IGVFFI0825KMZO](/sequence-files/IGVFFI0825KMZO/), [IGVFFI0771XGBN](/sequence-files/IGVFFI0771XGBN/), [IGVFFI1870FBGA](/sequence-files/IGVFFI1870FBGA/), [IGVFFI1744AVXC](/sequence-files/IGVFFI1744AVXC/), [IGVFFI5070HSEG](/sequence-files/IGVFFI5070HSEG/), [IGVFFI5824BTSG](/sequence-files/IGVFFI5824BTSG/), [IGVFFI1190ZXKK](/sequence-files/IGVFFI1190ZXKK/), [IGVFFI2367JHST](/sequence-files/IGVFFI2367JHST/), [IGVFFI3535HXAP](/sequence-files/IGVFFI3535HXAP/), [IGVFFI6765QZSM](/sequence-files/IGVFFI6765QZSM/), [IGVFFI8421PLYI](/sequence-files/IGVFFI8421PLYI/), [IGVFFI1017QKKQ](/sequence-files/IGVFFI1017QKKQ/), [IGVFFI6285ILUX](/sequence-files/IGVFFI6285ILUX/), [IGVFFI5498TYRV](/sequence-files/IGVFFI5498TYRV/), [IGVFFI3105NPCJ](/sequence-files/IGVFFI3105NPCJ/), [IGVFFI5732CDSO](/sequence-files/IGVFFI5732CDSO/), [IGVFFI6700DMWS](/sequence-files/IGVFFI6700DMWS/), [IGVFFI7406XZOP](/sequence-files/IGVFFI7406XZOP/), [IGVFFI4173YXPL](/sequence-files/IGVFFI4173YXPL/), [IGVFFI8403BEFW](/sequence-files/IGVFFI8403BEFW/), [IGVFFI2301ERHJ](/sequence-files/IGVFFI2301ERHJ/), [IGVFFI0872NGUU](/sequence-files/IGVFFI0872NGUU/), [IGVFFI0926TEIU](/sequence-files/IGVFFI0926TEIU/), [IGVFFI3597BDBH](/sequence-files/IGVFFI3597BDBH/) 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/IGVFDS7378QBUS/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS7378QBUS](/measurement-sets/IGVFDS7378QBUS/) 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/IGVFDS7378QBUS/"
}
]
},
"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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"accession": "IGVFDO7359LVPI",
"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
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"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T08:25:22.136203+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": "ceb5121c-a52d-40b1-b168-ef5578a2da08"
}