{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS0414OFOP/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS0414OFOP",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-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 [IGVFDS0414OFOP](/measurement-sets/IGVFDS0414OFOP/) has sequence file(s) [IGVFFI0468PHEO](/sequence-files/IGVFFI0468PHEO/), [IGVFFI8405WSUF](/sequence-files/IGVFFI8405WSUF/), [IGVFFI8147EBTB](/sequence-files/IGVFFI8147EBTB/), [IGVFFI5809SWRT](/sequence-files/IGVFFI5809SWRT/), [IGVFFI4611YYNV](/sequence-files/IGVFFI4611YYNV/), [IGVFFI3605ECTN](/sequence-files/IGVFFI3605ECTN/), [IGVFFI3360ACWY](/sequence-files/IGVFFI3360ACWY/), [IGVFFI1009NHZT](/sequence-files/IGVFFI1009NHZT/), [IGVFFI6375QGAM](/sequence-files/IGVFFI6375QGAM/), [IGVFFI3238JREJ](/sequence-files/IGVFFI3238JREJ/), [IGVFFI6046QHHN](/sequence-files/IGVFFI6046QHHN/), [IGVFFI9252QDFR](/sequence-files/IGVFFI9252QDFR/), [IGVFFI1643PNQH](/sequence-files/IGVFFI1643PNQH/), [IGVFFI9289LNLO](/sequence-files/IGVFFI9289LNLO/), [IGVFFI4241VUXL](/sequence-files/IGVFFI4241VUXL/), [IGVFFI8353VPDI](/sequence-files/IGVFFI8353VPDI/), [IGVFFI4659RQLN](/sequence-files/IGVFFI4659RQLN/), [IGVFFI6507LJGX](/sequence-files/IGVFFI6507LJGX/), [IGVFFI9121OTUW](/sequence-files/IGVFFI9121OTUW/), [IGVFFI8244ZKRG](/sequence-files/IGVFFI8244ZKRG/), [IGVFFI7961NUGO](/sequence-files/IGVFFI7961NUGO/), [IGVFFI5254WWKS](/sequence-files/IGVFFI5254WWKS/), [IGVFFI0811IRGW](/sequence-files/IGVFFI0811IRGW/), [IGVFFI9703XITK](/sequence-files/IGVFFI9703XITK/), [IGVFFI3014YHCF](/sequence-files/IGVFFI3014YHCF/), [IGVFFI2772UMCD](/sequence-files/IGVFFI2772UMCD/), [IGVFFI9612TKPM](/sequence-files/IGVFFI9612TKPM/), [IGVFFI0026VHFY](/sequence-files/IGVFFI0026VHFY/), [IGVFFI4198KJMW](/sequence-files/IGVFFI4198KJMW/), [IGVFFI3191MDQA](/sequence-files/IGVFFI3191MDQA/), [IGVFFI0143MMOO](/sequence-files/IGVFFI0143MMOO/), [IGVFFI0505OCCD](/sequence-files/IGVFFI0505OCCD/) 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/IGVFDS0414OFOP/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS0414OFOP](/measurement-sets/IGVFDS0414OFOP/) has sequence file(s): [IGVFFI0468PHEO](/sequence-files/IGVFFI0468PHEO/), [IGVFFI8405WSUF](/sequence-files/IGVFFI8405WSUF/), [IGVFFI8147EBTB](/sequence-files/IGVFFI8147EBTB/), [IGVFFI5809SWRT](/sequence-files/IGVFFI5809SWRT/), [IGVFFI4611YYNV](/sequence-files/IGVFFI4611YYNV/), [IGVFFI3605ECTN](/sequence-files/IGVFFI3605ECTN/), [IGVFFI3360ACWY](/sequence-files/IGVFFI3360ACWY/), [IGVFFI1009NHZT](/sequence-files/IGVFFI1009NHZT/), [IGVFFI6375QGAM](/sequence-files/IGVFFI6375QGAM/), [IGVFFI3238JREJ](/sequence-files/IGVFFI3238JREJ/), [IGVFFI6046QHHN](/sequence-files/IGVFFI6046QHHN/), [IGVFFI9252QDFR](/sequence-files/IGVFFI9252QDFR/), [IGVFFI1643PNQH](/sequence-files/IGVFFI1643PNQH/), [IGVFFI9289LNLO](/sequence-files/IGVFFI9289LNLO/), [IGVFFI4241VUXL](/sequence-files/IGVFFI4241VUXL/), [IGVFFI8353VPDI](/sequence-files/IGVFFI8353VPDI/), [IGVFFI4659RQLN](/sequence-files/IGVFFI4659RQLN/), [IGVFFI6507LJGX](/sequence-files/IGVFFI6507LJGX/), [IGVFFI9121OTUW](/sequence-files/IGVFFI9121OTUW/), [IGVFFI8244ZKRG](/sequence-files/IGVFFI8244ZKRG/), [IGVFFI7961NUGO](/sequence-files/IGVFFI7961NUGO/), [IGVFFI5254WWKS](/sequence-files/IGVFFI5254WWKS/), [IGVFFI0811IRGW](/sequence-files/IGVFFI0811IRGW/), [IGVFFI9703XITK](/sequence-files/IGVFFI9703XITK/), [IGVFFI3014YHCF](/sequence-files/IGVFFI3014YHCF/), [IGVFFI2772UMCD](/sequence-files/IGVFFI2772UMCD/), [IGVFFI9612TKPM](/sequence-files/IGVFFI9612TKPM/), [IGVFFI0026VHFY](/sequence-files/IGVFFI0026VHFY/), [IGVFFI4198KJMW](/sequence-files/IGVFFI4198KJMW/), [IGVFFI3191MDQA](/sequence-files/IGVFFI3191MDQA/), [IGVFFI0143MMOO](/sequence-files/IGVFFI0143MMOO/), [IGVFFI0505OCCD](/sequence-files/IGVFFI0505OCCD/) 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/IGVFDS0414OFOP/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM9103RFFD](/in-vitro-systems/IGVFSM9103RFFD/) 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/IGVFSM9103RFFD/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM9103RFFD](/in-vitro-systems/IGVFSM9103RFFD/) 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/IGVFSM9103RFFD/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS0414OFOP](/measurement-sets/IGVFDS0414OFOP/) 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/IGVFDS0414OFOP/"
}
]
},
"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": "2024-11-22T00:47:10.863477+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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{
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"accession": "IGVFFI0468PHEO",
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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": "2024-11-22T02:19:07.968886+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": "e24540ba-7cba-4dd3-90e1-466751b2ea78"
}