{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS0872DEIB/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS0872DEIB",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep2-BinC_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 [IGVFSM3467IDCX](/in-vitro-systems/IGVFSM3467IDCX/) 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/IGVFSM3467IDCX/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS0872DEIB](/measurement-sets/IGVFDS0872DEIB/) has sequence file(s) [IGVFFI1990CBJX](/sequence-files/IGVFFI1990CBJX/), [IGVFFI6331ZPTC](/sequence-files/IGVFFI6331ZPTC/), [IGVFFI1153KKCP](/sequence-files/IGVFFI1153KKCP/), [IGVFFI2205IBWF](/sequence-files/IGVFFI2205IBWF/), [IGVFFI0566ZKCN](/sequence-files/IGVFFI0566ZKCN/), [IGVFFI8405HCME](/sequence-files/IGVFFI8405HCME/), [IGVFFI9948XQHH](/sequence-files/IGVFFI9948XQHH/), [IGVFFI4878XBGB](/sequence-files/IGVFFI4878XBGB/), [IGVFFI2910QBII](/sequence-files/IGVFFI2910QBII/), [IGVFFI3794NDKE](/sequence-files/IGVFFI3794NDKE/), [IGVFFI4740KBSJ](/sequence-files/IGVFFI4740KBSJ/), [IGVFFI5741VODP](/sequence-files/IGVFFI5741VODP/), [IGVFFI6115MGMH](/sequence-files/IGVFFI6115MGMH/), [IGVFFI5930RGWG](/sequence-files/IGVFFI5930RGWG/), [IGVFFI6581DRVN](/sequence-files/IGVFFI6581DRVN/), [IGVFFI8154AJMP](/sequence-files/IGVFFI8154AJMP/), [IGVFFI1668TYGS](/sequence-files/IGVFFI1668TYGS/), [IGVFFI9558SOFB](/sequence-files/IGVFFI9558SOFB/), [IGVFFI3049LEUK](/sequence-files/IGVFFI3049LEUK/), [IGVFFI5635KDID](/sequence-files/IGVFFI5635KDID/), [IGVFFI6873RNCJ](/sequence-files/IGVFFI6873RNCJ/), [IGVFFI2554SDYO](/sequence-files/IGVFFI2554SDYO/), [IGVFFI4145AAJP](/sequence-files/IGVFFI4145AAJP/), [IGVFFI4639IDVU](/sequence-files/IGVFFI4639IDVU/), [IGVFFI8638TCGO](/sequence-files/IGVFFI8638TCGO/), [IGVFFI8109NITQ](/sequence-files/IGVFFI8109NITQ/), [IGVFFI3878REHP](/sequence-files/IGVFFI3878REHP/), [IGVFFI6717RCWI](/sequence-files/IGVFFI6717RCWI/), [IGVFFI1498BTSR](/sequence-files/IGVFFI1498BTSR/), [IGVFFI9235CGPE](/sequence-files/IGVFFI9235CGPE/), [IGVFFI6601UNIT](/sequence-files/IGVFFI6601UNIT/), [IGVFFI8396KMOX](/sequence-files/IGVFFI8396KMOX/), [IGVFFI8845PCNO](/sequence-files/IGVFFI8845PCNO/), [IGVFFI0708IVTV](/sequence-files/IGVFFI0708IVTV/), [IGVFFI4471BFBY](/sequence-files/IGVFFI4471BFBY/), [IGVFFI1643LYMG](/sequence-files/IGVFFI1643LYMG/), [IGVFFI1935JILX](/sequence-files/IGVFFI1935JILX/), [IGVFFI4573JFJK](/sequence-files/IGVFFI4573JFJK/), [IGVFFI8754HTDA](/sequence-files/IGVFFI8754HTDA/), [IGVFFI2118MSMM](/sequence-files/IGVFFI2118MSMM/), [IGVFFI4420AJWD](/sequence-files/IGVFFI4420AJWD/), [IGVFFI6506GWDI](/sequence-files/IGVFFI6506GWDI/), [IGVFFI4865ONEK](/sequence-files/IGVFFI4865ONEK/), [IGVFFI7525AUIK](/sequence-files/IGVFFI7525AUIK/), [IGVFFI3300WBZW](/sequence-files/IGVFFI3300WBZW/), [IGVFFI4277VILJ](/sequence-files/IGVFFI4277VILJ/), [IGVFFI3958ZOYE](/sequence-files/IGVFFI3958ZOYE/), [IGVFFI6179XXDH](/sequence-files/IGVFFI6179XXDH/) 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/IGVFDS0872DEIB/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS0872DEIB](/measurement-sets/IGVFDS0872DEIB/) has sequence file(s): [IGVFFI1990CBJX](/sequence-files/IGVFFI1990CBJX/), [IGVFFI6331ZPTC](/sequence-files/IGVFFI6331ZPTC/), [IGVFFI1153KKCP](/sequence-files/IGVFFI1153KKCP/), [IGVFFI2205IBWF](/sequence-files/IGVFFI2205IBWF/), [IGVFFI0566ZKCN](/sequence-files/IGVFFI0566ZKCN/), [IGVFFI8405HCME](/sequence-files/IGVFFI8405HCME/), [IGVFFI9948XQHH](/sequence-files/IGVFFI9948XQHH/), [IGVFFI4878XBGB](/sequence-files/IGVFFI4878XBGB/), [IGVFFI2910QBII](/sequence-files/IGVFFI2910QBII/), [IGVFFI3794NDKE](/sequence-files/IGVFFI3794NDKE/), [IGVFFI4740KBSJ](/sequence-files/IGVFFI4740KBSJ/), [IGVFFI5741VODP](/sequence-files/IGVFFI5741VODP/), [IGVFFI6115MGMH](/sequence-files/IGVFFI6115MGMH/), [IGVFFI5930RGWG](/sequence-files/IGVFFI5930RGWG/), [IGVFFI6581DRVN](/sequence-files/IGVFFI6581DRVN/), [IGVFFI8154AJMP](/sequence-files/IGVFFI8154AJMP/), [IGVFFI1668TYGS](/sequence-files/IGVFFI1668TYGS/), [IGVFFI9558SOFB](/sequence-files/IGVFFI9558SOFB/), [IGVFFI3049LEUK](/sequence-files/IGVFFI3049LEUK/), [IGVFFI5635KDID](/sequence-files/IGVFFI5635KDID/), [IGVFFI6873RNCJ](/sequence-files/IGVFFI6873RNCJ/), [IGVFFI2554SDYO](/sequence-files/IGVFFI2554SDYO/), [IGVFFI4145AAJP](/sequence-files/IGVFFI4145AAJP/), [IGVFFI4639IDVU](/sequence-files/IGVFFI4639IDVU/), [IGVFFI8638TCGO](/sequence-files/IGVFFI8638TCGO/), [IGVFFI8109NITQ](/sequence-files/IGVFFI8109NITQ/), [IGVFFI3878REHP](/sequence-files/IGVFFI3878REHP/), [IGVFFI6717RCWI](/sequence-files/IGVFFI6717RCWI/), [IGVFFI1498BTSR](/sequence-files/IGVFFI1498BTSR/), [IGVFFI9235CGPE](/sequence-files/IGVFFI9235CGPE/), [IGVFFI6601UNIT](/sequence-files/IGVFFI6601UNIT/), [IGVFFI8396KMOX](/sequence-files/IGVFFI8396KMOX/), [IGVFFI8845PCNO](/sequence-files/IGVFFI8845PCNO/), [IGVFFI0708IVTV](/sequence-files/IGVFFI0708IVTV/), [IGVFFI4471BFBY](/sequence-files/IGVFFI4471BFBY/), [IGVFFI1643LYMG](/sequence-files/IGVFFI1643LYMG/), [IGVFFI1935JILX](/sequence-files/IGVFFI1935JILX/), [IGVFFI4573JFJK](/sequence-files/IGVFFI4573JFJK/), [IGVFFI8754HTDA](/sequence-files/IGVFFI8754HTDA/), [IGVFFI2118MSMM](/sequence-files/IGVFFI2118MSMM/), [IGVFFI4420AJWD](/sequence-files/IGVFFI4420AJWD/), [IGVFFI6506GWDI](/sequence-files/IGVFFI6506GWDI/), [IGVFFI4865ONEK](/sequence-files/IGVFFI4865ONEK/), [IGVFFI7525AUIK](/sequence-files/IGVFFI7525AUIK/), [IGVFFI3300WBZW](/sequence-files/IGVFFI3300WBZW/), [IGVFFI4277VILJ](/sequence-files/IGVFFI4277VILJ/), [IGVFFI3958ZOYE](/sequence-files/IGVFFI3958ZOYE/), [IGVFFI6179XXDH](/sequence-files/IGVFFI6179XXDH/) 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/IGVFDS0872DEIB/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS0872DEIB](/measurement-sets/IGVFDS0872DEIB/) 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/IGVFDS0872DEIB/"
}
]
},
"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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"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
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},
"submitted_files_timestamp": "2023-12-13T08:59:00.350266+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": "8064e61f-7098-4f50-bf5b-db46f383702c"
}