{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS8099KDSE/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS8099KDSE",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinD_AmpliconSequencing"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003661/",
"status": "released",
"term_name": "in vitro CRISPR screen using flow cytometry"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS8099KDSE](/measurement-sets/IGVFDS8099KDSE/) has sequence file(s) [IGVFFI6412EHVZ](/sequence-files/IGVFFI6412EHVZ/), [IGVFFI0549VBGU](/sequence-files/IGVFFI0549VBGU/), [IGVFFI3406FCOT](/sequence-files/IGVFFI3406FCOT/), [IGVFFI8470OGTN](/sequence-files/IGVFFI8470OGTN/), [IGVFFI3758UXBJ](/sequence-files/IGVFFI3758UXBJ/), [IGVFFI9405TXNB](/sequence-files/IGVFFI9405TXNB/), [IGVFFI9573XUTR](/sequence-files/IGVFFI9573XUTR/), [IGVFFI5564UHRU](/sequence-files/IGVFFI5564UHRU/), [IGVFFI7333EFKT](/sequence-files/IGVFFI7333EFKT/), [IGVFFI8513HYAB](/sequence-files/IGVFFI8513HYAB/), [IGVFFI5003GOLI](/sequence-files/IGVFFI5003GOLI/), [IGVFFI5041JQIM](/sequence-files/IGVFFI5041JQIM/), [IGVFFI5572OHAK](/sequence-files/IGVFFI5572OHAK/), [IGVFFI1534ORTZ](/sequence-files/IGVFFI1534ORTZ/), [IGVFFI1502MCXO](/sequence-files/IGVFFI1502MCXO/), [IGVFFI2585LKSN](/sequence-files/IGVFFI2585LKSN/), [IGVFFI5733WJWY](/sequence-files/IGVFFI5733WJWY/), [IGVFFI7080VUZV](/sequence-files/IGVFFI7080VUZV/), [IGVFFI9040GPJJ](/sequence-files/IGVFFI9040GPJJ/), [IGVFFI6476PSIF](/sequence-files/IGVFFI6476PSIF/), [IGVFFI5778YUEP](/sequence-files/IGVFFI5778YUEP/), [IGVFFI9945ZGUV](/sequence-files/IGVFFI9945ZGUV/), [IGVFFI5125BAJN](/sequence-files/IGVFFI5125BAJN/), [IGVFFI6249BZUU](/sequence-files/IGVFFI6249BZUU/), [IGVFFI3086OARI](/sequence-files/IGVFFI3086OARI/), [IGVFFI6833PBRT](/sequence-files/IGVFFI6833PBRT/), [IGVFFI3892COUG](/sequence-files/IGVFFI3892COUG/), [IGVFFI2069FMAV](/sequence-files/IGVFFI2069FMAV/), [IGVFFI4080PVGA](/sequence-files/IGVFFI4080PVGA/), [IGVFFI2759SBEF](/sequence-files/IGVFFI2759SBEF/), [IGVFFI6816LSQS](/sequence-files/IGVFFI6816LSQS/), [IGVFFI3307SSNJ](/sequence-files/IGVFFI3307SSNJ/), [IGVFFI2832YDAA](/sequence-files/IGVFFI2832YDAA/), [IGVFFI5013GDPR](/sequence-files/IGVFFI5013GDPR/), [IGVFFI9511GFJI](/sequence-files/IGVFFI9511GFJI/), [IGVFFI1101ZSHC](/sequence-files/IGVFFI1101ZSHC/), [IGVFFI8049JEBF](/sequence-files/IGVFFI8049JEBF/), [IGVFFI8687QXXN](/sequence-files/IGVFFI8687QXXN/), [IGVFFI1769QRUG](/sequence-files/IGVFFI1769QRUG/), [IGVFFI7656FUSL](/sequence-files/IGVFFI7656FUSL/), [IGVFFI8740SNVN](/sequence-files/IGVFFI8740SNVN/), [IGVFFI4567IFZE](/sequence-files/IGVFFI4567IFZE/), [IGVFFI7224SQSW](/sequence-files/IGVFFI7224SQSW/), [IGVFFI7849NMYB](/sequence-files/IGVFFI7849NMYB/), [IGVFFI9242IGFF](/sequence-files/IGVFFI9242IGFF/), [IGVFFI8501EIZU](/sequence-files/IGVFFI8501EIZU/), [IGVFFI3260HHDS](/sequence-files/IGVFFI3260HHDS/), [IGVFFI7958QZDR](/sequence-files/IGVFFI7958QZDR/) 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/IGVFDS8099KDSE/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS8099KDSE](/measurement-sets/IGVFDS8099KDSE/) has sequence file(s): [IGVFFI6412EHVZ](/sequence-files/IGVFFI6412EHVZ/), [IGVFFI0549VBGU](/sequence-files/IGVFFI0549VBGU/), [IGVFFI3406FCOT](/sequence-files/IGVFFI3406FCOT/), [IGVFFI8470OGTN](/sequence-files/IGVFFI8470OGTN/), [IGVFFI3758UXBJ](/sequence-files/IGVFFI3758UXBJ/), [IGVFFI9405TXNB](/sequence-files/IGVFFI9405TXNB/), [IGVFFI9573XUTR](/sequence-files/IGVFFI9573XUTR/), [IGVFFI5564UHRU](/sequence-files/IGVFFI5564UHRU/), [IGVFFI7333EFKT](/sequence-files/IGVFFI7333EFKT/), [IGVFFI8513HYAB](/sequence-files/IGVFFI8513HYAB/), [IGVFFI5003GOLI](/sequence-files/IGVFFI5003GOLI/), [IGVFFI5041JQIM](/sequence-files/IGVFFI5041JQIM/), [IGVFFI5572OHAK](/sequence-files/IGVFFI5572OHAK/), [IGVFFI1534ORTZ](/sequence-files/IGVFFI1534ORTZ/), [IGVFFI1502MCXO](/sequence-files/IGVFFI1502MCXO/), [IGVFFI2585LKSN](/sequence-files/IGVFFI2585LKSN/), [IGVFFI5733WJWY](/sequence-files/IGVFFI5733WJWY/), [IGVFFI7080VUZV](/sequence-files/IGVFFI7080VUZV/), [IGVFFI9040GPJJ](/sequence-files/IGVFFI9040GPJJ/), [IGVFFI6476PSIF](/sequence-files/IGVFFI6476PSIF/), [IGVFFI5778YUEP](/sequence-files/IGVFFI5778YUEP/), [IGVFFI9945ZGUV](/sequence-files/IGVFFI9945ZGUV/), [IGVFFI5125BAJN](/sequence-files/IGVFFI5125BAJN/), [IGVFFI6249BZUU](/sequence-files/IGVFFI6249BZUU/), [IGVFFI3086OARI](/sequence-files/IGVFFI3086OARI/), [IGVFFI6833PBRT](/sequence-files/IGVFFI6833PBRT/), [IGVFFI3892COUG](/sequence-files/IGVFFI3892COUG/), [IGVFFI2069FMAV](/sequence-files/IGVFFI2069FMAV/), [IGVFFI4080PVGA](/sequence-files/IGVFFI4080PVGA/), [IGVFFI2759SBEF](/sequence-files/IGVFFI2759SBEF/), [IGVFFI6816LSQS](/sequence-files/IGVFFI6816LSQS/), [IGVFFI3307SSNJ](/sequence-files/IGVFFI3307SSNJ/), [IGVFFI2832YDAA](/sequence-files/IGVFFI2832YDAA/), [IGVFFI5013GDPR](/sequence-files/IGVFFI5013GDPR/), [IGVFFI9511GFJI](/sequence-files/IGVFFI9511GFJI/), [IGVFFI1101ZSHC](/sequence-files/IGVFFI1101ZSHC/), [IGVFFI8049JEBF](/sequence-files/IGVFFI8049JEBF/), [IGVFFI8687QXXN](/sequence-files/IGVFFI8687QXXN/), [IGVFFI1769QRUG](/sequence-files/IGVFFI1769QRUG/), [IGVFFI7656FUSL](/sequence-files/IGVFFI7656FUSL/), [IGVFFI8740SNVN](/sequence-files/IGVFFI8740SNVN/), [IGVFFI4567IFZE](/sequence-files/IGVFFI4567IFZE/), [IGVFFI7224SQSW](/sequence-files/IGVFFI7224SQSW/), [IGVFFI7849NMYB](/sequence-files/IGVFFI7849NMYB/), [IGVFFI9242IGFF](/sequence-files/IGVFFI9242IGFF/), [IGVFFI8501EIZU](/sequence-files/IGVFFI8501EIZU/), [IGVFFI3260HHDS](/sequence-files/IGVFFI3260HHDS/), [IGVFFI7958QZDR](/sequence-files/IGVFFI7958QZDR/) 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/IGVFDS8099KDSE/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM5640BXQI](/in-vitro-systems/IGVFSM5640BXQI/) 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/IGVFSM5640BXQI/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS8099KDSE](/measurement-sets/IGVFDS8099KDSE/) 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/IGVFDS8099KDSE/"
}
]
},
"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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],
"status": "released"
}
],
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"creation_timestamp": "2023-12-13T08:01:44.166757+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO7359LVPI/",
"accession": "IGVFDO7359LVPI",
"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
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"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T08:50:49.511166+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": "07d32d12-bb5a-4640-b3e2-a3fe12510949"
}