{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS6384OLQB/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS6384OLQB",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep3-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 [IGVFDS6384OLQB](/measurement-sets/IGVFDS6384OLQB/) has sequence file(s) [IGVFFI8514FZSX](/sequence-files/IGVFFI8514FZSX/), [IGVFFI5885OHLF](/sequence-files/IGVFFI5885OHLF/), [IGVFFI5943CFOT](/sequence-files/IGVFFI5943CFOT/), [IGVFFI0477NWCQ](/sequence-files/IGVFFI0477NWCQ/), [IGVFFI3190WRDA](/sequence-files/IGVFFI3190WRDA/), [IGVFFI3654WJLA](/sequence-files/IGVFFI3654WJLA/), [IGVFFI7588HJWX](/sequence-files/IGVFFI7588HJWX/), [IGVFFI1526LMUD](/sequence-files/IGVFFI1526LMUD/), [IGVFFI6527TIMK](/sequence-files/IGVFFI6527TIMK/), [IGVFFI6091ZCGZ](/sequence-files/IGVFFI6091ZCGZ/), [IGVFFI1320HCEW](/sequence-files/IGVFFI1320HCEW/), [IGVFFI5553GWNR](/sequence-files/IGVFFI5553GWNR/), [IGVFFI0075NRDV](/sequence-files/IGVFFI0075NRDV/), [IGVFFI4048ISZR](/sequence-files/IGVFFI4048ISZR/), [IGVFFI1021OHWZ](/sequence-files/IGVFFI1021OHWZ/), [IGVFFI4914VBPX](/sequence-files/IGVFFI4914VBPX/), [IGVFFI0675BFFI](/sequence-files/IGVFFI0675BFFI/), [IGVFFI9144TFFY](/sequence-files/IGVFFI9144TFFY/), [IGVFFI5474KBUG](/sequence-files/IGVFFI5474KBUG/), [IGVFFI8865BGDP](/sequence-files/IGVFFI8865BGDP/), [IGVFFI7945EHVE](/sequence-files/IGVFFI7945EHVE/), [IGVFFI7588IUSC](/sequence-files/IGVFFI7588IUSC/), [IGVFFI7779NNCB](/sequence-files/IGVFFI7779NNCB/), [IGVFFI1313ZANK](/sequence-files/IGVFFI1313ZANK/), [IGVFFI5214BCWE](/sequence-files/IGVFFI5214BCWE/), [IGVFFI0704EXUX](/sequence-files/IGVFFI0704EXUX/), [IGVFFI0285QVEW](/sequence-files/IGVFFI0285QVEW/), [IGVFFI7457BTGG](/sequence-files/IGVFFI7457BTGG/), [IGVFFI3130ANMH](/sequence-files/IGVFFI3130ANMH/), [IGVFFI8535SIFG](/sequence-files/IGVFFI8535SIFG/), [IGVFFI0640JQJC](/sequence-files/IGVFFI0640JQJC/), [IGVFFI8119VIHT](/sequence-files/IGVFFI8119VIHT/), [IGVFFI2148IVJH](/sequence-files/IGVFFI2148IVJH/), [IGVFFI1442ZZUG](/sequence-files/IGVFFI1442ZZUG/), [IGVFFI6406SKBK](/sequence-files/IGVFFI6406SKBK/), [IGVFFI3505NULA](/sequence-files/IGVFFI3505NULA/), [IGVFFI2661NEMR](/sequence-files/IGVFFI2661NEMR/), [IGVFFI4175NGXC](/sequence-files/IGVFFI4175NGXC/), [IGVFFI2320TDED](/sequence-files/IGVFFI2320TDED/), [IGVFFI0775QLSE](/sequence-files/IGVFFI0775QLSE/), [IGVFFI2654GZWO](/sequence-files/IGVFFI2654GZWO/), [IGVFFI3480EYXY](/sequence-files/IGVFFI3480EYXY/), [IGVFFI2215WSNR](/sequence-files/IGVFFI2215WSNR/), [IGVFFI9685WFZP](/sequence-files/IGVFFI9685WFZP/), [IGVFFI1093ZXXW](/sequence-files/IGVFFI1093ZXXW/), [IGVFFI4623DAEQ](/sequence-files/IGVFFI4623DAEQ/), [IGVFFI2661BIIB](/sequence-files/IGVFFI2661BIIB/), [IGVFFI3846NYDO](/sequence-files/IGVFFI3846NYDO/) 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/IGVFDS6384OLQB/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS6384OLQB](/measurement-sets/IGVFDS6384OLQB/) has sequence file(s): [IGVFFI8514FZSX](/sequence-files/IGVFFI8514FZSX/), [IGVFFI5885OHLF](/sequence-files/IGVFFI5885OHLF/), [IGVFFI5943CFOT](/sequence-files/IGVFFI5943CFOT/), [IGVFFI0477NWCQ](/sequence-files/IGVFFI0477NWCQ/), [IGVFFI3190WRDA](/sequence-files/IGVFFI3190WRDA/), [IGVFFI3654WJLA](/sequence-files/IGVFFI3654WJLA/), [IGVFFI7588HJWX](/sequence-files/IGVFFI7588HJWX/), [IGVFFI1526LMUD](/sequence-files/IGVFFI1526LMUD/), [IGVFFI6527TIMK](/sequence-files/IGVFFI6527TIMK/), [IGVFFI6091ZCGZ](/sequence-files/IGVFFI6091ZCGZ/), [IGVFFI1320HCEW](/sequence-files/IGVFFI1320HCEW/), [IGVFFI5553GWNR](/sequence-files/IGVFFI5553GWNR/), [IGVFFI0075NRDV](/sequence-files/IGVFFI0075NRDV/), [IGVFFI4048ISZR](/sequence-files/IGVFFI4048ISZR/), [IGVFFI1021OHWZ](/sequence-files/IGVFFI1021OHWZ/), [IGVFFI4914VBPX](/sequence-files/IGVFFI4914VBPX/), [IGVFFI0675BFFI](/sequence-files/IGVFFI0675BFFI/), [IGVFFI9144TFFY](/sequence-files/IGVFFI9144TFFY/), [IGVFFI5474KBUG](/sequence-files/IGVFFI5474KBUG/), [IGVFFI8865BGDP](/sequence-files/IGVFFI8865BGDP/), [IGVFFI7945EHVE](/sequence-files/IGVFFI7945EHVE/), [IGVFFI7588IUSC](/sequence-files/IGVFFI7588IUSC/), [IGVFFI7779NNCB](/sequence-files/IGVFFI7779NNCB/), [IGVFFI1313ZANK](/sequence-files/IGVFFI1313ZANK/), [IGVFFI5214BCWE](/sequence-files/IGVFFI5214BCWE/), [IGVFFI0704EXUX](/sequence-files/IGVFFI0704EXUX/), [IGVFFI0285QVEW](/sequence-files/IGVFFI0285QVEW/), [IGVFFI7457BTGG](/sequence-files/IGVFFI7457BTGG/), [IGVFFI3130ANMH](/sequence-files/IGVFFI3130ANMH/), [IGVFFI8535SIFG](/sequence-files/IGVFFI8535SIFG/), [IGVFFI0640JQJC](/sequence-files/IGVFFI0640JQJC/), [IGVFFI8119VIHT](/sequence-files/IGVFFI8119VIHT/), [IGVFFI2148IVJH](/sequence-files/IGVFFI2148IVJH/), [IGVFFI1442ZZUG](/sequence-files/IGVFFI1442ZZUG/), [IGVFFI6406SKBK](/sequence-files/IGVFFI6406SKBK/), [IGVFFI3505NULA](/sequence-files/IGVFFI3505NULA/), [IGVFFI2661NEMR](/sequence-files/IGVFFI2661NEMR/), [IGVFFI4175NGXC](/sequence-files/IGVFFI4175NGXC/), [IGVFFI2320TDED](/sequence-files/IGVFFI2320TDED/), [IGVFFI0775QLSE](/sequence-files/IGVFFI0775QLSE/), [IGVFFI2654GZWO](/sequence-files/IGVFFI2654GZWO/), [IGVFFI3480EYXY](/sequence-files/IGVFFI3480EYXY/), [IGVFFI2215WSNR](/sequence-files/IGVFFI2215WSNR/), [IGVFFI9685WFZP](/sequence-files/IGVFFI9685WFZP/), [IGVFFI1093ZXXW](/sequence-files/IGVFFI1093ZXXW/), [IGVFFI4623DAEQ](/sequence-files/IGVFFI4623DAEQ/), [IGVFFI2661BIIB](/sequence-files/IGVFFI2661BIIB/), [IGVFFI3846NYDO](/sequence-files/IGVFFI3846NYDO/) 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/IGVFDS6384OLQB/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM7963WTMN](/in-vitro-systems/IGVFSM7963WTMN/) 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/IGVFSM7963WTMN/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS6384OLQB](/measurement-sets/IGVFDS6384OLQB/) 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/IGVFDS6384OLQB/"
}
]
},
"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": "2023-12-13T08:01:47.231161+00:00",
"donors": [
{
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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": "2023-12-13T09:07:34.643349+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": "8b72cac0-220b-4b8f-9f1f-09aa210620ff"
}