{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS4916MNSK/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS4916MNSK",
"aliases": [
"jesse-engreitz:230423pPPIFEnformer-Jurkat-Amp_PPIF_promoter-BioRep1-FFrep1-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 [IGVFSM0519CRES](/in-vitro-systems/IGVFSM0519CRES/) 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/IGVFSM0519CRES/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS4916MNSK](/measurement-sets/IGVFDS4916MNSK/) has sequence file(s) [IGVFFI7808SBJU](/sequence-files/IGVFFI7808SBJU/), [IGVFFI9871DGJR](/sequence-files/IGVFFI9871DGJR/), [IGVFFI0386OHBA](/sequence-files/IGVFFI0386OHBA/), [IGVFFI4560URLC](/sequence-files/IGVFFI4560URLC/), [IGVFFI1223MSKP](/sequence-files/IGVFFI1223MSKP/), [IGVFFI4029AQOT](/sequence-files/IGVFFI4029AQOT/), [IGVFFI9479ZRUL](/sequence-files/IGVFFI9479ZRUL/), [IGVFFI3882TQQD](/sequence-files/IGVFFI3882TQQD/), [IGVFFI3106HTUW](/sequence-files/IGVFFI3106HTUW/), [IGVFFI6286TZXR](/sequence-files/IGVFFI6286TZXR/), [IGVFFI7898KHXK](/sequence-files/IGVFFI7898KHXK/), [IGVFFI3851PIGW](/sequence-files/IGVFFI3851PIGW/), [IGVFFI7270XKNA](/sequence-files/IGVFFI7270XKNA/), [IGVFFI6167VXML](/sequence-files/IGVFFI6167VXML/), [IGVFFI7369VWRR](/sequence-files/IGVFFI7369VWRR/), [IGVFFI4295BSZA](/sequence-files/IGVFFI4295BSZA/), [IGVFFI9050TCMC](/sequence-files/IGVFFI9050TCMC/), [IGVFFI0983JMUX](/sequence-files/IGVFFI0983JMUX/), [IGVFFI9239MOKN](/sequence-files/IGVFFI9239MOKN/), [IGVFFI2292BCAH](/sequence-files/IGVFFI2292BCAH/), [IGVFFI2597GFMH](/sequence-files/IGVFFI2597GFMH/), [IGVFFI7433DWRT](/sequence-files/IGVFFI7433DWRT/), [IGVFFI4993PWNH](/sequence-files/IGVFFI4993PWNH/), [IGVFFI0904VENA](/sequence-files/IGVFFI0904VENA/), [IGVFFI8155VIPJ](/sequence-files/IGVFFI8155VIPJ/), [IGVFFI7230JPOB](/sequence-files/IGVFFI7230JPOB/), [IGVFFI4344MGFQ](/sequence-files/IGVFFI4344MGFQ/), [IGVFFI9646KRQI](/sequence-files/IGVFFI9646KRQI/), [IGVFFI9477PHVA](/sequence-files/IGVFFI9477PHVA/), [IGVFFI5898YXKS](/sequence-files/IGVFFI5898YXKS/), [IGVFFI3429NQTF](/sequence-files/IGVFFI3429NQTF/), [IGVFFI2521GCQE](/sequence-files/IGVFFI2521GCQE/), [IGVFFI9827NJTH](/sequence-files/IGVFFI9827NJTH/), [IGVFFI4228ITMD](/sequence-files/IGVFFI4228ITMD/), [IGVFFI1670CWMK](/sequence-files/IGVFFI1670CWMK/), [IGVFFI0268GXJS](/sequence-files/IGVFFI0268GXJS/), [IGVFFI7750EIBZ](/sequence-files/IGVFFI7750EIBZ/), [IGVFFI6268LGQP](/sequence-files/IGVFFI6268LGQP/), [IGVFFI1050UTFE](/sequence-files/IGVFFI1050UTFE/), [IGVFFI7721CWZV](/sequence-files/IGVFFI7721CWZV/), [IGVFFI4944YPVH](/sequence-files/IGVFFI4944YPVH/), [IGVFFI8805ZHVI](/sequence-files/IGVFFI8805ZHVI/), [IGVFFI1086XUCO](/sequence-files/IGVFFI1086XUCO/), [IGVFFI2698KFGD](/sequence-files/IGVFFI2698KFGD/), [IGVFFI8099EIPT](/sequence-files/IGVFFI8099EIPT/), [IGVFFI6743TYYO](/sequence-files/IGVFFI6743TYYO/), [IGVFFI2971JMMQ](/sequence-files/IGVFFI2971JMMQ/), [IGVFFI2965VJVW](/sequence-files/IGVFFI2965VJVW/) 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/IGVFDS4916MNSK/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS4916MNSK](/measurement-sets/IGVFDS4916MNSK/) has sequence file(s): [IGVFFI7808SBJU](/sequence-files/IGVFFI7808SBJU/), [IGVFFI9871DGJR](/sequence-files/IGVFFI9871DGJR/), [IGVFFI0386OHBA](/sequence-files/IGVFFI0386OHBA/), [IGVFFI4560URLC](/sequence-files/IGVFFI4560URLC/), [IGVFFI1223MSKP](/sequence-files/IGVFFI1223MSKP/), [IGVFFI4029AQOT](/sequence-files/IGVFFI4029AQOT/), [IGVFFI9479ZRUL](/sequence-files/IGVFFI9479ZRUL/), [IGVFFI3882TQQD](/sequence-files/IGVFFI3882TQQD/), [IGVFFI3106HTUW](/sequence-files/IGVFFI3106HTUW/), [IGVFFI6286TZXR](/sequence-files/IGVFFI6286TZXR/), [IGVFFI7898KHXK](/sequence-files/IGVFFI7898KHXK/), [IGVFFI3851PIGW](/sequence-files/IGVFFI3851PIGW/), [IGVFFI7270XKNA](/sequence-files/IGVFFI7270XKNA/), [IGVFFI6167VXML](/sequence-files/IGVFFI6167VXML/), [IGVFFI7369VWRR](/sequence-files/IGVFFI7369VWRR/), [IGVFFI4295BSZA](/sequence-files/IGVFFI4295BSZA/), [IGVFFI9050TCMC](/sequence-files/IGVFFI9050TCMC/), [IGVFFI0983JMUX](/sequence-files/IGVFFI0983JMUX/), [IGVFFI9239MOKN](/sequence-files/IGVFFI9239MOKN/), [IGVFFI2292BCAH](/sequence-files/IGVFFI2292BCAH/), [IGVFFI2597GFMH](/sequence-files/IGVFFI2597GFMH/), [IGVFFI7433DWRT](/sequence-files/IGVFFI7433DWRT/), [IGVFFI4993PWNH](/sequence-files/IGVFFI4993PWNH/), [IGVFFI0904VENA](/sequence-files/IGVFFI0904VENA/), [IGVFFI8155VIPJ](/sequence-files/IGVFFI8155VIPJ/), [IGVFFI7230JPOB](/sequence-files/IGVFFI7230JPOB/), [IGVFFI4344MGFQ](/sequence-files/IGVFFI4344MGFQ/), [IGVFFI9646KRQI](/sequence-files/IGVFFI9646KRQI/), [IGVFFI9477PHVA](/sequence-files/IGVFFI9477PHVA/), [IGVFFI5898YXKS](/sequence-files/IGVFFI5898YXKS/), [IGVFFI3429NQTF](/sequence-files/IGVFFI3429NQTF/), [IGVFFI2521GCQE](/sequence-files/IGVFFI2521GCQE/), [IGVFFI9827NJTH](/sequence-files/IGVFFI9827NJTH/), [IGVFFI4228ITMD](/sequence-files/IGVFFI4228ITMD/), [IGVFFI1670CWMK](/sequence-files/IGVFFI1670CWMK/), [IGVFFI0268GXJS](/sequence-files/IGVFFI0268GXJS/), [IGVFFI7750EIBZ](/sequence-files/IGVFFI7750EIBZ/), [IGVFFI6268LGQP](/sequence-files/IGVFFI6268LGQP/), [IGVFFI1050UTFE](/sequence-files/IGVFFI1050UTFE/), [IGVFFI7721CWZV](/sequence-files/IGVFFI7721CWZV/), [IGVFFI4944YPVH](/sequence-files/IGVFFI4944YPVH/), [IGVFFI8805ZHVI](/sequence-files/IGVFFI8805ZHVI/), [IGVFFI1086XUCO](/sequence-files/IGVFFI1086XUCO/), [IGVFFI2698KFGD](/sequence-files/IGVFFI2698KFGD/), [IGVFFI8099EIPT](/sequence-files/IGVFFI8099EIPT/), [IGVFFI6743TYYO](/sequence-files/IGVFFI6743TYYO/), [IGVFFI2971JMMQ](/sequence-files/IGVFFI2971JMMQ/), [IGVFFI2965VJVW](/sequence-files/IGVFFI2965VJVW/) 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/IGVFDS4916MNSK/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS4916MNSK](/measurement-sets/IGVFDS4916MNSK/) 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/IGVFDS4916MNSK/"
}
]
},
"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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],
"status": "released"
}
],
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"creation_timestamp": "2023-12-13T08:48:02.970136+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": "2023-12-13T09:19:19.813373+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": "5cf3993e-dadc-4489-960d-4a7869b1d2dd"
}