{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS3202JLFH/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS3202JLFH",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-BioRep1-FFRep3-BinB_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 [IGVFDS3202JLFH](/measurement-sets/IGVFDS3202JLFH/) has sequence file(s) [IGVFFI6538ZMEO](/sequence-files/IGVFFI6538ZMEO/), [IGVFFI0701RIOV](/sequence-files/IGVFFI0701RIOV/), [IGVFFI7676WXBD](/sequence-files/IGVFFI7676WXBD/), [IGVFFI7601XPKB](/sequence-files/IGVFFI7601XPKB/), [IGVFFI2514NNAS](/sequence-files/IGVFFI2514NNAS/), [IGVFFI9018COQC](/sequence-files/IGVFFI9018COQC/), [IGVFFI7233GBWO](/sequence-files/IGVFFI7233GBWO/), [IGVFFI1030PUMH](/sequence-files/IGVFFI1030PUMH/), [IGVFFI6767EEDH](/sequence-files/IGVFFI6767EEDH/), [IGVFFI0194LBLW](/sequence-files/IGVFFI0194LBLW/), [IGVFFI8750EXGU](/sequence-files/IGVFFI8750EXGU/), [IGVFFI0615OFGZ](/sequence-files/IGVFFI0615OFGZ/), [IGVFFI2177KIRQ](/sequence-files/IGVFFI2177KIRQ/), [IGVFFI8574QAWV](/sequence-files/IGVFFI8574QAWV/), [IGVFFI8736ONYO](/sequence-files/IGVFFI8736ONYO/), [IGVFFI8120NISF](/sequence-files/IGVFFI8120NISF/), [IGVFFI0224MFEA](/sequence-files/IGVFFI0224MFEA/), [IGVFFI2083MTBF](/sequence-files/IGVFFI2083MTBF/), [IGVFFI3582YPET](/sequence-files/IGVFFI3582YPET/), [IGVFFI5648PKTT](/sequence-files/IGVFFI5648PKTT/), [IGVFFI1153PKCI](/sequence-files/IGVFFI1153PKCI/), [IGVFFI2526TPZK](/sequence-files/IGVFFI2526TPZK/), [IGVFFI4236BGOI](/sequence-files/IGVFFI4236BGOI/), [IGVFFI9616HUUZ](/sequence-files/IGVFFI9616HUUZ/), [IGVFFI8776DOMF](/sequence-files/IGVFFI8776DOMF/), [IGVFFI9335PTDU](/sequence-files/IGVFFI9335PTDU/), [IGVFFI2233NCAF](/sequence-files/IGVFFI2233NCAF/), [IGVFFI4378UYHG](/sequence-files/IGVFFI4378UYHG/), [IGVFFI3450OUFP](/sequence-files/IGVFFI3450OUFP/), [IGVFFI8966DVQL](/sequence-files/IGVFFI8966DVQL/), [IGVFFI9627AMQK](/sequence-files/IGVFFI9627AMQK/), [IGVFFI2590SIXT](/sequence-files/IGVFFI2590SIXT/) 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/IGVFDS3202JLFH/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS3202JLFH](/measurement-sets/IGVFDS3202JLFH/) has sequence file(s): [IGVFFI6538ZMEO](/sequence-files/IGVFFI6538ZMEO/), [IGVFFI0701RIOV](/sequence-files/IGVFFI0701RIOV/), [IGVFFI7676WXBD](/sequence-files/IGVFFI7676WXBD/), [IGVFFI7601XPKB](/sequence-files/IGVFFI7601XPKB/), [IGVFFI2514NNAS](/sequence-files/IGVFFI2514NNAS/), [IGVFFI9018COQC](/sequence-files/IGVFFI9018COQC/), [IGVFFI7233GBWO](/sequence-files/IGVFFI7233GBWO/), [IGVFFI1030PUMH](/sequence-files/IGVFFI1030PUMH/), [IGVFFI6767EEDH](/sequence-files/IGVFFI6767EEDH/), [IGVFFI0194LBLW](/sequence-files/IGVFFI0194LBLW/), [IGVFFI8750EXGU](/sequence-files/IGVFFI8750EXGU/), [IGVFFI0615OFGZ](/sequence-files/IGVFFI0615OFGZ/), [IGVFFI2177KIRQ](/sequence-files/IGVFFI2177KIRQ/), [IGVFFI8574QAWV](/sequence-files/IGVFFI8574QAWV/), [IGVFFI8736ONYO](/sequence-files/IGVFFI8736ONYO/), [IGVFFI8120NISF](/sequence-files/IGVFFI8120NISF/), [IGVFFI0224MFEA](/sequence-files/IGVFFI0224MFEA/), [IGVFFI2083MTBF](/sequence-files/IGVFFI2083MTBF/), [IGVFFI3582YPET](/sequence-files/IGVFFI3582YPET/), [IGVFFI5648PKTT](/sequence-files/IGVFFI5648PKTT/), [IGVFFI1153PKCI](/sequence-files/IGVFFI1153PKCI/), [IGVFFI2526TPZK](/sequence-files/IGVFFI2526TPZK/), [IGVFFI4236BGOI](/sequence-files/IGVFFI4236BGOI/), [IGVFFI9616HUUZ](/sequence-files/IGVFFI9616HUUZ/), [IGVFFI8776DOMF](/sequence-files/IGVFFI8776DOMF/), [IGVFFI9335PTDU](/sequence-files/IGVFFI9335PTDU/), [IGVFFI2233NCAF](/sequence-files/IGVFFI2233NCAF/), [IGVFFI4378UYHG](/sequence-files/IGVFFI4378UYHG/), [IGVFFI3450OUFP](/sequence-files/IGVFFI3450OUFP/), [IGVFFI8966DVQL](/sequence-files/IGVFFI8966DVQL/), [IGVFFI9627AMQK](/sequence-files/IGVFFI9627AMQK/), [IGVFFI2590SIXT](/sequence-files/IGVFFI2590SIXT/) 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/IGVFDS3202JLFH/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM4883HGPU](/in-vitro-systems/IGVFSM4883HGPU/) has in progress subobject treatment [cf87f410-54ee-48ef-b654-8443c4fee032](/treatments/cf87f410-54ee-48ef-b654-8443c4fee032/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM4883HGPU/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM4883HGPU](/in-vitro-systems/IGVFSM4883HGPU/) has in progress subobject treatment [4b5f0d13-ec20-4b91-85f5-a009cd91451f](/treatments/4b5f0d13-ec20-4b91-85f5-a009cd91451f/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM4883HGPU/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS3202JLFH](/measurement-sets/IGVFDS3202JLFH/) 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/IGVFDS3202JLFH/"
}
]
},
"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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"aliases": [
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],
"status": "preview"
}
],
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"creation_timestamp": "2024-11-22T00:47:46.867926+00:00",
"donors": [
{
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"accession": "IGVFDO1080XFGV",
"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
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"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2024-11-22T06:03:10.138818+00:00",
"summary": "CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus",
"targeted_genes": [
{
"@id": "/genes/ENSG00000134460/",
"geneid": "ENSG00000134460",
"name": "interleukin 2 receptor subunit alpha",
"status": "released",
"symbol": "IL2RA",
"synonyms": [
"interleukin-2 receptor subunit alpha",
"IL2R",
"TAC antigen",
"IMD41",
"IL-2R subunit alpha",
"CD25",
"IL-2 receptor subunit alpha",
"IDDM10",
"TCGFR",
"p55",
"interleukin 2 receptor, alpha"
]
}
],
"uuid": "0667f8ab-182a-4549-b8e2-b4e91eb052ad"
}