{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS4537KNTB/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS4537KNTB",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-BioRep2-FFRep2-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 [IGVFDS4537KNTB](/measurement-sets/IGVFDS4537KNTB/) has sequence file(s) [IGVFFI1232WZVI](/sequence-files/IGVFFI1232WZVI/), [IGVFFI2122CRQF](/sequence-files/IGVFFI2122CRQF/), [IGVFFI6267OETF](/sequence-files/IGVFFI6267OETF/), [IGVFFI8756RLSD](/sequence-files/IGVFFI8756RLSD/), [IGVFFI0594NBRG](/sequence-files/IGVFFI0594NBRG/), [IGVFFI7478PIGJ](/sequence-files/IGVFFI7478PIGJ/), [IGVFFI4995SXLY](/sequence-files/IGVFFI4995SXLY/), [IGVFFI4906CNQS](/sequence-files/IGVFFI4906CNQS/), [IGVFFI3873PDJT](/sequence-files/IGVFFI3873PDJT/), [IGVFFI9595IEQL](/sequence-files/IGVFFI9595IEQL/), [IGVFFI0408MJBK](/sequence-files/IGVFFI0408MJBK/), [IGVFFI2525IGMG](/sequence-files/IGVFFI2525IGMG/), [IGVFFI8452WEBS](/sequence-files/IGVFFI8452WEBS/), [IGVFFI1121YBEV](/sequence-files/IGVFFI1121YBEV/), [IGVFFI8024YQQG](/sequence-files/IGVFFI8024YQQG/), [IGVFFI7937DKWS](/sequence-files/IGVFFI7937DKWS/), [IGVFFI7641WIAU](/sequence-files/IGVFFI7641WIAU/), [IGVFFI1146EOHJ](/sequence-files/IGVFFI1146EOHJ/), [IGVFFI8407YYOM](/sequence-files/IGVFFI8407YYOM/), [IGVFFI3201KCRQ](/sequence-files/IGVFFI3201KCRQ/), [IGVFFI1781GSSX](/sequence-files/IGVFFI1781GSSX/), [IGVFFI4177AJVS](/sequence-files/IGVFFI4177AJVS/), [IGVFFI2695BCCM](/sequence-files/IGVFFI2695BCCM/), [IGVFFI5869WSZV](/sequence-files/IGVFFI5869WSZV/), [IGVFFI1911QHBD](/sequence-files/IGVFFI1911QHBD/), [IGVFFI2705GQHS](/sequence-files/IGVFFI2705GQHS/), [IGVFFI7197QXQT](/sequence-files/IGVFFI7197QXQT/), [IGVFFI1883QOSK](/sequence-files/IGVFFI1883QOSK/), [IGVFFI0310CNHA](/sequence-files/IGVFFI0310CNHA/), [IGVFFI9245IEWK](/sequence-files/IGVFFI9245IEWK/), [IGVFFI3605KYBC](/sequence-files/IGVFFI3605KYBC/), [IGVFFI2015TXCI](/sequence-files/IGVFFI2015TXCI/) 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/IGVFDS4537KNTB/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS4537KNTB](/measurement-sets/IGVFDS4537KNTB/) has sequence file(s): [IGVFFI1232WZVI](/sequence-files/IGVFFI1232WZVI/), [IGVFFI2122CRQF](/sequence-files/IGVFFI2122CRQF/), [IGVFFI6267OETF](/sequence-files/IGVFFI6267OETF/), [IGVFFI8756RLSD](/sequence-files/IGVFFI8756RLSD/), [IGVFFI0594NBRG](/sequence-files/IGVFFI0594NBRG/), [IGVFFI7478PIGJ](/sequence-files/IGVFFI7478PIGJ/), [IGVFFI4995SXLY](/sequence-files/IGVFFI4995SXLY/), [IGVFFI4906CNQS](/sequence-files/IGVFFI4906CNQS/), [IGVFFI3873PDJT](/sequence-files/IGVFFI3873PDJT/), [IGVFFI9595IEQL](/sequence-files/IGVFFI9595IEQL/), [IGVFFI0408MJBK](/sequence-files/IGVFFI0408MJBK/), [IGVFFI2525IGMG](/sequence-files/IGVFFI2525IGMG/), [IGVFFI8452WEBS](/sequence-files/IGVFFI8452WEBS/), [IGVFFI1121YBEV](/sequence-files/IGVFFI1121YBEV/), [IGVFFI8024YQQG](/sequence-files/IGVFFI8024YQQG/), [IGVFFI7937DKWS](/sequence-files/IGVFFI7937DKWS/), [IGVFFI7641WIAU](/sequence-files/IGVFFI7641WIAU/), [IGVFFI1146EOHJ](/sequence-files/IGVFFI1146EOHJ/), [IGVFFI8407YYOM](/sequence-files/IGVFFI8407YYOM/), [IGVFFI3201KCRQ](/sequence-files/IGVFFI3201KCRQ/), [IGVFFI1781GSSX](/sequence-files/IGVFFI1781GSSX/), [IGVFFI4177AJVS](/sequence-files/IGVFFI4177AJVS/), [IGVFFI2695BCCM](/sequence-files/IGVFFI2695BCCM/), [IGVFFI5869WSZV](/sequence-files/IGVFFI5869WSZV/), [IGVFFI1911QHBD](/sequence-files/IGVFFI1911QHBD/), [IGVFFI2705GQHS](/sequence-files/IGVFFI2705GQHS/), [IGVFFI7197QXQT](/sequence-files/IGVFFI7197QXQT/), [IGVFFI1883QOSK](/sequence-files/IGVFFI1883QOSK/), [IGVFFI0310CNHA](/sequence-files/IGVFFI0310CNHA/), [IGVFFI9245IEWK](/sequence-files/IGVFFI9245IEWK/), [IGVFFI3605KYBC](/sequence-files/IGVFFI3605KYBC/), [IGVFFI2015TXCI](/sequence-files/IGVFFI2015TXCI/) 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/IGVFDS4537KNTB/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM3690RUXJ](/in-vitro-systems/IGVFSM3690RUXJ/) 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/IGVFSM3690RUXJ/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM3690RUXJ](/in-vitro-systems/IGVFSM3690RUXJ/) 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/IGVFSM3690RUXJ/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS4537KNTB](/measurement-sets/IGVFDS4537KNTB/) 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/IGVFDS4537KNTB/"
}
]
},
"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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"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-NegControl_AmpliconSequencing"
],
"status": "preview"
}
],
"control_for": [],
"creation_timestamp": "2024-11-22T00:48:38.657189+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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"accession": "IGVFFI1232WZVI",
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},
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},
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},
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},
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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": "2024-11-22T06:35:08.998833+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": "2afdb9b8-6029-417f-848a-0f5e28394b27"
}