{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS9275AQHE/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS9275AQHE",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep1-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 [IGVFDS9275AQHE](/measurement-sets/IGVFDS9275AQHE/) has sequence file(s) [IGVFFI4212SWQZ](/sequence-files/IGVFFI4212SWQZ/), [IGVFFI9506UZBX](/sequence-files/IGVFFI9506UZBX/), [IGVFFI2370NVEP](/sequence-files/IGVFFI2370NVEP/), [IGVFFI7333SDXA](/sequence-files/IGVFFI7333SDXA/), [IGVFFI6885PMDN](/sequence-files/IGVFFI6885PMDN/), [IGVFFI6000IWKN](/sequence-files/IGVFFI6000IWKN/), [IGVFFI9512GROF](/sequence-files/IGVFFI9512GROF/), [IGVFFI1349PSNO](/sequence-files/IGVFFI1349PSNO/), [IGVFFI4496NAXS](/sequence-files/IGVFFI4496NAXS/), [IGVFFI8156IOEL](/sequence-files/IGVFFI8156IOEL/), [IGVFFI2788ZIVH](/sequence-files/IGVFFI2788ZIVH/), [IGVFFI7635MXZB](/sequence-files/IGVFFI7635MXZB/), [IGVFFI1318QSXA](/sequence-files/IGVFFI1318QSXA/), [IGVFFI4035COOK](/sequence-files/IGVFFI4035COOK/), [IGVFFI1996OQLF](/sequence-files/IGVFFI1996OQLF/), [IGVFFI9627LSBE](/sequence-files/IGVFFI9627LSBE/), [IGVFFI7193GOBX](/sequence-files/IGVFFI7193GOBX/), [IGVFFI3625MAGM](/sequence-files/IGVFFI3625MAGM/), [IGVFFI2205PHKL](/sequence-files/IGVFFI2205PHKL/), [IGVFFI5329VJOE](/sequence-files/IGVFFI5329VJOE/), [IGVFFI2507NVZH](/sequence-files/IGVFFI2507NVZH/), [IGVFFI4611PCSH](/sequence-files/IGVFFI4611PCSH/), [IGVFFI2853VKAO](/sequence-files/IGVFFI2853VKAO/), [IGVFFI1639KPBO](/sequence-files/IGVFFI1639KPBO/), [IGVFFI0264VZUN](/sequence-files/IGVFFI0264VZUN/), [IGVFFI7493AMTO](/sequence-files/IGVFFI7493AMTO/), [IGVFFI9201GRPO](/sequence-files/IGVFFI9201GRPO/), [IGVFFI0580VFSG](/sequence-files/IGVFFI0580VFSG/), [IGVFFI7549UYER](/sequence-files/IGVFFI7549UYER/), [IGVFFI8884TKIT](/sequence-files/IGVFFI8884TKIT/), [IGVFFI4541HLSP](/sequence-files/IGVFFI4541HLSP/), [IGVFFI4212LCLN](/sequence-files/IGVFFI4212LCLN/), [IGVFFI8280ZHZM](/sequence-files/IGVFFI8280ZHZM/), [IGVFFI1402CUXW](/sequence-files/IGVFFI1402CUXW/), [IGVFFI7148NFFG](/sequence-files/IGVFFI7148NFFG/), [IGVFFI0610HOZO](/sequence-files/IGVFFI0610HOZO/), [IGVFFI3326FYBP](/sequence-files/IGVFFI3326FYBP/), [IGVFFI9800IWXP](/sequence-files/IGVFFI9800IWXP/), [IGVFFI8365OADG](/sequence-files/IGVFFI8365OADG/), [IGVFFI9208JUTV](/sequence-files/IGVFFI9208JUTV/), [IGVFFI6093RTPK](/sequence-files/IGVFFI6093RTPK/), [IGVFFI6017ZZHH](/sequence-files/IGVFFI6017ZZHH/), [IGVFFI2021NOYQ](/sequence-files/IGVFFI2021NOYQ/), [IGVFFI3876GTCL](/sequence-files/IGVFFI3876GTCL/), [IGVFFI1223EDLB](/sequence-files/IGVFFI1223EDLB/), [IGVFFI9579AYKA](/sequence-files/IGVFFI9579AYKA/), [IGVFFI1474TSKO](/sequence-files/IGVFFI1474TSKO/), [IGVFFI6321SFEN](/sequence-files/IGVFFI6321SFEN/) 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/IGVFDS9275AQHE/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS9275AQHE](/measurement-sets/IGVFDS9275AQHE/) has sequence file(s): [IGVFFI4212SWQZ](/sequence-files/IGVFFI4212SWQZ/), [IGVFFI9506UZBX](/sequence-files/IGVFFI9506UZBX/), [IGVFFI2370NVEP](/sequence-files/IGVFFI2370NVEP/), [IGVFFI7333SDXA](/sequence-files/IGVFFI7333SDXA/), [IGVFFI6885PMDN](/sequence-files/IGVFFI6885PMDN/), [IGVFFI6000IWKN](/sequence-files/IGVFFI6000IWKN/), [IGVFFI9512GROF](/sequence-files/IGVFFI9512GROF/), [IGVFFI1349PSNO](/sequence-files/IGVFFI1349PSNO/), [IGVFFI4496NAXS](/sequence-files/IGVFFI4496NAXS/), [IGVFFI8156IOEL](/sequence-files/IGVFFI8156IOEL/), [IGVFFI2788ZIVH](/sequence-files/IGVFFI2788ZIVH/), [IGVFFI7635MXZB](/sequence-files/IGVFFI7635MXZB/), [IGVFFI1318QSXA](/sequence-files/IGVFFI1318QSXA/), [IGVFFI4035COOK](/sequence-files/IGVFFI4035COOK/), [IGVFFI1996OQLF](/sequence-files/IGVFFI1996OQLF/), [IGVFFI9627LSBE](/sequence-files/IGVFFI9627LSBE/), [IGVFFI7193GOBX](/sequence-files/IGVFFI7193GOBX/), [IGVFFI3625MAGM](/sequence-files/IGVFFI3625MAGM/), [IGVFFI2205PHKL](/sequence-files/IGVFFI2205PHKL/), [IGVFFI5329VJOE](/sequence-files/IGVFFI5329VJOE/), [IGVFFI2507NVZH](/sequence-files/IGVFFI2507NVZH/), [IGVFFI4611PCSH](/sequence-files/IGVFFI4611PCSH/), [IGVFFI2853VKAO](/sequence-files/IGVFFI2853VKAO/), [IGVFFI1639KPBO](/sequence-files/IGVFFI1639KPBO/), [IGVFFI0264VZUN](/sequence-files/IGVFFI0264VZUN/), [IGVFFI7493AMTO](/sequence-files/IGVFFI7493AMTO/), [IGVFFI9201GRPO](/sequence-files/IGVFFI9201GRPO/), [IGVFFI0580VFSG](/sequence-files/IGVFFI0580VFSG/), [IGVFFI7549UYER](/sequence-files/IGVFFI7549UYER/), [IGVFFI8884TKIT](/sequence-files/IGVFFI8884TKIT/), [IGVFFI4541HLSP](/sequence-files/IGVFFI4541HLSP/), [IGVFFI4212LCLN](/sequence-files/IGVFFI4212LCLN/), [IGVFFI8280ZHZM](/sequence-files/IGVFFI8280ZHZM/), [IGVFFI1402CUXW](/sequence-files/IGVFFI1402CUXW/), [IGVFFI7148NFFG](/sequence-files/IGVFFI7148NFFG/), [IGVFFI0610HOZO](/sequence-files/IGVFFI0610HOZO/), [IGVFFI3326FYBP](/sequence-files/IGVFFI3326FYBP/), [IGVFFI9800IWXP](/sequence-files/IGVFFI9800IWXP/), [IGVFFI8365OADG](/sequence-files/IGVFFI8365OADG/), [IGVFFI9208JUTV](/sequence-files/IGVFFI9208JUTV/), [IGVFFI6093RTPK](/sequence-files/IGVFFI6093RTPK/), [IGVFFI6017ZZHH](/sequence-files/IGVFFI6017ZZHH/), [IGVFFI2021NOYQ](/sequence-files/IGVFFI2021NOYQ/), [IGVFFI3876GTCL](/sequence-files/IGVFFI3876GTCL/), [IGVFFI1223EDLB](/sequence-files/IGVFFI1223EDLB/), [IGVFFI9579AYKA](/sequence-files/IGVFFI9579AYKA/), [IGVFFI1474TSKO](/sequence-files/IGVFFI1474TSKO/), [IGVFFI6321SFEN](/sequence-files/IGVFFI6321SFEN/) 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/IGVFDS9275AQHE/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM5208LYWU](/in-vitro-systems/IGVFSM5208LYWU/) 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/IGVFSM5208LYWU/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS9275AQHE](/measurement-sets/IGVFDS9275AQHE/) 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/IGVFDS9275AQHE/"
}
]
},
"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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"creation_timestamp": "2023-12-13T08:01:37.507256+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": "2023-12-13T08:16:57.496920+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": "d364b8aa-3a26-4cd5-a7e8-6e57772cafb1"
}