{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS7494CPQT/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS7494CPQT",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-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 [IGVFDS7494CPQT](/measurement-sets/IGVFDS7494CPQT/) has sequence file(s) [IGVFFI3828HZHL](/sequence-files/IGVFFI3828HZHL/), [IGVFFI9778YNFL](/sequence-files/IGVFFI9778YNFL/), [IGVFFI6468BSDO](/sequence-files/IGVFFI6468BSDO/), [IGVFFI9307XHOG](/sequence-files/IGVFFI9307XHOG/), [IGVFFI9232LRJK](/sequence-files/IGVFFI9232LRJK/), [IGVFFI0657KLJQ](/sequence-files/IGVFFI0657KLJQ/), [IGVFFI7288KUNO](/sequence-files/IGVFFI7288KUNO/), [IGVFFI6473EUXW](/sequence-files/IGVFFI6473EUXW/), [IGVFFI5301QKQE](/sequence-files/IGVFFI5301QKQE/), [IGVFFI6780TJFO](/sequence-files/IGVFFI6780TJFO/), [IGVFFI1481WCMF](/sequence-files/IGVFFI1481WCMF/), [IGVFFI7708ULLF](/sequence-files/IGVFFI7708ULLF/), [IGVFFI2921KYSX](/sequence-files/IGVFFI2921KYSX/), [IGVFFI5263GCUL](/sequence-files/IGVFFI5263GCUL/), [IGVFFI7642OFRI](/sequence-files/IGVFFI7642OFRI/), [IGVFFI2212EHSQ](/sequence-files/IGVFFI2212EHSQ/), [IGVFFI7272OFRT](/sequence-files/IGVFFI7272OFRT/), [IGVFFI0205GCHI](/sequence-files/IGVFFI0205GCHI/), [IGVFFI1280NVZM](/sequence-files/IGVFFI1280NVZM/), [IGVFFI9778XRNF](/sequence-files/IGVFFI9778XRNF/), [IGVFFI7121PDDK](/sequence-files/IGVFFI7121PDDK/), [IGVFFI2076BOCT](/sequence-files/IGVFFI2076BOCT/), [IGVFFI9002YYXQ](/sequence-files/IGVFFI9002YYXQ/), [IGVFFI4500BQZZ](/sequence-files/IGVFFI4500BQZZ/), [IGVFFI3578QTRA](/sequence-files/IGVFFI3578QTRA/), [IGVFFI9021QYEY](/sequence-files/IGVFFI9021QYEY/), [IGVFFI9743VAPN](/sequence-files/IGVFFI9743VAPN/), [IGVFFI5702LWUT](/sequence-files/IGVFFI5702LWUT/), [IGVFFI0367KUMY](/sequence-files/IGVFFI0367KUMY/), [IGVFFI0477SISU](/sequence-files/IGVFFI0477SISU/), [IGVFFI1194WNUB](/sequence-files/IGVFFI1194WNUB/), [IGVFFI9848CCUM](/sequence-files/IGVFFI9848CCUM/) 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/IGVFDS7494CPQT/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS7494CPQT](/measurement-sets/IGVFDS7494CPQT/) has sequence file(s): [IGVFFI3828HZHL](/sequence-files/IGVFFI3828HZHL/), [IGVFFI9778YNFL](/sequence-files/IGVFFI9778YNFL/), [IGVFFI6468BSDO](/sequence-files/IGVFFI6468BSDO/), [IGVFFI9307XHOG](/sequence-files/IGVFFI9307XHOG/), [IGVFFI9232LRJK](/sequence-files/IGVFFI9232LRJK/), [IGVFFI0657KLJQ](/sequence-files/IGVFFI0657KLJQ/), [IGVFFI7288KUNO](/sequence-files/IGVFFI7288KUNO/), [IGVFFI6473EUXW](/sequence-files/IGVFFI6473EUXW/), [IGVFFI5301QKQE](/sequence-files/IGVFFI5301QKQE/), [IGVFFI6780TJFO](/sequence-files/IGVFFI6780TJFO/), [IGVFFI1481WCMF](/sequence-files/IGVFFI1481WCMF/), [IGVFFI7708ULLF](/sequence-files/IGVFFI7708ULLF/), [IGVFFI2921KYSX](/sequence-files/IGVFFI2921KYSX/), [IGVFFI5263GCUL](/sequence-files/IGVFFI5263GCUL/), [IGVFFI7642OFRI](/sequence-files/IGVFFI7642OFRI/), [IGVFFI2212EHSQ](/sequence-files/IGVFFI2212EHSQ/), [IGVFFI7272OFRT](/sequence-files/IGVFFI7272OFRT/), [IGVFFI0205GCHI](/sequence-files/IGVFFI0205GCHI/), [IGVFFI1280NVZM](/sequence-files/IGVFFI1280NVZM/), [IGVFFI9778XRNF](/sequence-files/IGVFFI9778XRNF/), [IGVFFI7121PDDK](/sequence-files/IGVFFI7121PDDK/), [IGVFFI2076BOCT](/sequence-files/IGVFFI2076BOCT/), [IGVFFI9002YYXQ](/sequence-files/IGVFFI9002YYXQ/), [IGVFFI4500BQZZ](/sequence-files/IGVFFI4500BQZZ/), [IGVFFI3578QTRA](/sequence-files/IGVFFI3578QTRA/), [IGVFFI9021QYEY](/sequence-files/IGVFFI9021QYEY/), [IGVFFI9743VAPN](/sequence-files/IGVFFI9743VAPN/), [IGVFFI5702LWUT](/sequence-files/IGVFFI5702LWUT/), [IGVFFI0367KUMY](/sequence-files/IGVFFI0367KUMY/), [IGVFFI0477SISU](/sequence-files/IGVFFI0477SISU/), [IGVFFI1194WNUB](/sequence-files/IGVFFI1194WNUB/), [IGVFFI9848CCUM](/sequence-files/IGVFFI9848CCUM/) 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/IGVFDS7494CPQT/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM1871BLFB](/in-vitro-systems/IGVFSM1871BLFB/) 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/IGVFSM1871BLFB/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM1871BLFB](/in-vitro-systems/IGVFSM1871BLFB/) 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/IGVFSM1871BLFB/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS7494CPQT](/measurement-sets/IGVFDS7494CPQT/) 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/IGVFDS7494CPQT/"
}
]
},
"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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"accession": "IGVFDS6874YIXA",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-NegControl_AmpliconSequencing"
],
"status": "preview"
}
],
"control_for": [],
"creation_timestamp": "2024-11-22T00:49:13.582939+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO1080XFGV/",
"accession": "IGVFDO1080XFGV",
"aliases": [
"igvf:donor_of_Jurkat"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
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"accession": "IGVFFI3828HZHL",
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},
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},
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},
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"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2024-11-22T06:52:29.671944+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": "43df0f25-db96-46c6-9544-101ad631b195"
}