{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS3326NVFS/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS3326NVFS",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep4-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 [IGVFSM6196LFWY](/in-vitro-systems/IGVFSM6196LFWY/) 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/IGVFSM6196LFWY/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS3326NVFS](/measurement-sets/IGVFDS3326NVFS/) has sequence file(s) [IGVFFI6211HFJI](/sequence-files/IGVFFI6211HFJI/), [IGVFFI6849HRJB](/sequence-files/IGVFFI6849HRJB/), [IGVFFI9488LUIK](/sequence-files/IGVFFI9488LUIK/), [IGVFFI8016NYWO](/sequence-files/IGVFFI8016NYWO/), [IGVFFI0246WLIS](/sequence-files/IGVFFI0246WLIS/), [IGVFFI8358IADX](/sequence-files/IGVFFI8358IADX/), [IGVFFI4548OMAK](/sequence-files/IGVFFI4548OMAK/), [IGVFFI2617WVMQ](/sequence-files/IGVFFI2617WVMQ/), [IGVFFI8424PUCG](/sequence-files/IGVFFI8424PUCG/), [IGVFFI7709LVDB](/sequence-files/IGVFFI7709LVDB/), [IGVFFI4261PVJC](/sequence-files/IGVFFI4261PVJC/), [IGVFFI7761WZTQ](/sequence-files/IGVFFI7761WZTQ/), [IGVFFI0867YMCU](/sequence-files/IGVFFI0867YMCU/), [IGVFFI4407KUVD](/sequence-files/IGVFFI4407KUVD/), [IGVFFI0441JLWA](/sequence-files/IGVFFI0441JLWA/), [IGVFFI1277EBKM](/sequence-files/IGVFFI1277EBKM/), [IGVFFI0123ADIP](/sequence-files/IGVFFI0123ADIP/), [IGVFFI0134ACNG](/sequence-files/IGVFFI0134ACNG/), [IGVFFI5946KIFR](/sequence-files/IGVFFI5946KIFR/), [IGVFFI6181NBYT](/sequence-files/IGVFFI6181NBYT/), [IGVFFI5191TUWB](/sequence-files/IGVFFI5191TUWB/), [IGVFFI6813LUGK](/sequence-files/IGVFFI6813LUGK/), [IGVFFI4073GXTM](/sequence-files/IGVFFI4073GXTM/), [IGVFFI1082AMST](/sequence-files/IGVFFI1082AMST/), [IGVFFI7831WEPE](/sequence-files/IGVFFI7831WEPE/), [IGVFFI9972QWZM](/sequence-files/IGVFFI9972QWZM/), [IGVFFI1444KQFJ](/sequence-files/IGVFFI1444KQFJ/), [IGVFFI2940UYKS](/sequence-files/IGVFFI2940UYKS/), [IGVFFI4062DZXY](/sequence-files/IGVFFI4062DZXY/), [IGVFFI4981QRBU](/sequence-files/IGVFFI4981QRBU/), [IGVFFI1064TWGN](/sequence-files/IGVFFI1064TWGN/), [IGVFFI8270XVGK](/sequence-files/IGVFFI8270XVGK/), [IGVFFI1088XKRT](/sequence-files/IGVFFI1088XKRT/), [IGVFFI4798LOFZ](/sequence-files/IGVFFI4798LOFZ/), [IGVFFI5708BEHG](/sequence-files/IGVFFI5708BEHG/), [IGVFFI8012RRXD](/sequence-files/IGVFFI8012RRXD/), [IGVFFI7552MBTV](/sequence-files/IGVFFI7552MBTV/), [IGVFFI3437HYBR](/sequence-files/IGVFFI3437HYBR/), [IGVFFI1309XRYA](/sequence-files/IGVFFI1309XRYA/), [IGVFFI8728QLKF](/sequence-files/IGVFFI8728QLKF/), [IGVFFI6880CNHY](/sequence-files/IGVFFI6880CNHY/), [IGVFFI6608TLPQ](/sequence-files/IGVFFI6608TLPQ/), [IGVFFI6937MHGN](/sequence-files/IGVFFI6937MHGN/), [IGVFFI3752GUAO](/sequence-files/IGVFFI3752GUAO/), [IGVFFI0508OVBU](/sequence-files/IGVFFI0508OVBU/), [IGVFFI9776OKNO](/sequence-files/IGVFFI9776OKNO/), [IGVFFI6081UGVZ](/sequence-files/IGVFFI6081UGVZ/), [IGVFFI9296JNYS](/sequence-files/IGVFFI9296JNYS/) 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/IGVFDS3326NVFS/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS3326NVFS](/measurement-sets/IGVFDS3326NVFS/) has sequence file(s): [IGVFFI6211HFJI](/sequence-files/IGVFFI6211HFJI/), [IGVFFI6849HRJB](/sequence-files/IGVFFI6849HRJB/), [IGVFFI9488LUIK](/sequence-files/IGVFFI9488LUIK/), [IGVFFI8016NYWO](/sequence-files/IGVFFI8016NYWO/), [IGVFFI0246WLIS](/sequence-files/IGVFFI0246WLIS/), [IGVFFI8358IADX](/sequence-files/IGVFFI8358IADX/), [IGVFFI4548OMAK](/sequence-files/IGVFFI4548OMAK/), [IGVFFI2617WVMQ](/sequence-files/IGVFFI2617WVMQ/), [IGVFFI8424PUCG](/sequence-files/IGVFFI8424PUCG/), [IGVFFI7709LVDB](/sequence-files/IGVFFI7709LVDB/), [IGVFFI4261PVJC](/sequence-files/IGVFFI4261PVJC/), [IGVFFI7761WZTQ](/sequence-files/IGVFFI7761WZTQ/), [IGVFFI0867YMCU](/sequence-files/IGVFFI0867YMCU/), [IGVFFI4407KUVD](/sequence-files/IGVFFI4407KUVD/), [IGVFFI0441JLWA](/sequence-files/IGVFFI0441JLWA/), [IGVFFI1277EBKM](/sequence-files/IGVFFI1277EBKM/), [IGVFFI0123ADIP](/sequence-files/IGVFFI0123ADIP/), [IGVFFI0134ACNG](/sequence-files/IGVFFI0134ACNG/), [IGVFFI5946KIFR](/sequence-files/IGVFFI5946KIFR/), [IGVFFI6181NBYT](/sequence-files/IGVFFI6181NBYT/), [IGVFFI5191TUWB](/sequence-files/IGVFFI5191TUWB/), [IGVFFI6813LUGK](/sequence-files/IGVFFI6813LUGK/), [IGVFFI4073GXTM](/sequence-files/IGVFFI4073GXTM/), [IGVFFI1082AMST](/sequence-files/IGVFFI1082AMST/), [IGVFFI7831WEPE](/sequence-files/IGVFFI7831WEPE/), [IGVFFI9972QWZM](/sequence-files/IGVFFI9972QWZM/), [IGVFFI1444KQFJ](/sequence-files/IGVFFI1444KQFJ/), [IGVFFI2940UYKS](/sequence-files/IGVFFI2940UYKS/), [IGVFFI4062DZXY](/sequence-files/IGVFFI4062DZXY/), [IGVFFI4981QRBU](/sequence-files/IGVFFI4981QRBU/), [IGVFFI1064TWGN](/sequence-files/IGVFFI1064TWGN/), [IGVFFI8270XVGK](/sequence-files/IGVFFI8270XVGK/), [IGVFFI1088XKRT](/sequence-files/IGVFFI1088XKRT/), [IGVFFI4798LOFZ](/sequence-files/IGVFFI4798LOFZ/), [IGVFFI5708BEHG](/sequence-files/IGVFFI5708BEHG/), [IGVFFI8012RRXD](/sequence-files/IGVFFI8012RRXD/), [IGVFFI7552MBTV](/sequence-files/IGVFFI7552MBTV/), [IGVFFI3437HYBR](/sequence-files/IGVFFI3437HYBR/), [IGVFFI1309XRYA](/sequence-files/IGVFFI1309XRYA/), [IGVFFI8728QLKF](/sequence-files/IGVFFI8728QLKF/), [IGVFFI6880CNHY](/sequence-files/IGVFFI6880CNHY/), [IGVFFI6608TLPQ](/sequence-files/IGVFFI6608TLPQ/), [IGVFFI6937MHGN](/sequence-files/IGVFFI6937MHGN/), [IGVFFI3752GUAO](/sequence-files/IGVFFI3752GUAO/), [IGVFFI0508OVBU](/sequence-files/IGVFFI0508OVBU/), [IGVFFI9776OKNO](/sequence-files/IGVFFI9776OKNO/), [IGVFFI6081UGVZ](/sequence-files/IGVFFI6081UGVZ/), [IGVFFI9296JNYS](/sequence-files/IGVFFI9296JNYS/) 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/IGVFDS3326NVFS/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS3326NVFS](/measurement-sets/IGVFDS3326NVFS/) 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/IGVFDS3326NVFS/"
}
]
},
"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": "2023-12-13T08:01:48.133719+00:00",
"donors": [
{
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"accession": "IGVFDO7359LVPI",
"aliases": [
"igvf:donor_of_THP1"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
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},
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"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T09:15:41.201585+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": "bb8e5f27-797d-49cc-9c1b-63ddd4f1c4be"
}