{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS9863HSXN/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS9863HSXN",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-BioRep1-FFRep2-BinA_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 [IGVFDS9863HSXN](/measurement-sets/IGVFDS9863HSXN/) has sequence file(s) [IGVFFI7532ZSCO](/sequence-files/IGVFFI7532ZSCO/), [IGVFFI7436BYIV](/sequence-files/IGVFFI7436BYIV/), [IGVFFI7694ETEW](/sequence-files/IGVFFI7694ETEW/), [IGVFFI4617GQYB](/sequence-files/IGVFFI4617GQYB/), [IGVFFI0041XXQU](/sequence-files/IGVFFI0041XXQU/), [IGVFFI2310ZZRD](/sequence-files/IGVFFI2310ZZRD/), [IGVFFI5302SGSX](/sequence-files/IGVFFI5302SGSX/), [IGVFFI5377THVW](/sequence-files/IGVFFI5377THVW/), [IGVFFI6631VCMV](/sequence-files/IGVFFI6631VCMV/), [IGVFFI8969IASQ](/sequence-files/IGVFFI8969IASQ/), [IGVFFI5714KUXS](/sequence-files/IGVFFI5714KUXS/), [IGVFFI9248ETIY](/sequence-files/IGVFFI9248ETIY/), [IGVFFI9697YQGS](/sequence-files/IGVFFI9697YQGS/), [IGVFFI3324UWBJ](/sequence-files/IGVFFI3324UWBJ/), [IGVFFI4682FKDO](/sequence-files/IGVFFI4682FKDO/), [IGVFFI3363KKCB](/sequence-files/IGVFFI3363KKCB/), [IGVFFI3965EOPY](/sequence-files/IGVFFI3965EOPY/), [IGVFFI9648GXOY](/sequence-files/IGVFFI9648GXOY/), [IGVFFI6877PKHJ](/sequence-files/IGVFFI6877PKHJ/), [IGVFFI9858XMHP](/sequence-files/IGVFFI9858XMHP/), [IGVFFI9273EMJS](/sequence-files/IGVFFI9273EMJS/), [IGVFFI8750AHMN](/sequence-files/IGVFFI8750AHMN/), [IGVFFI8617WYAM](/sequence-files/IGVFFI8617WYAM/), [IGVFFI7409DIRH](/sequence-files/IGVFFI7409DIRH/), [IGVFFI7901XAWI](/sequence-files/IGVFFI7901XAWI/), [IGVFFI8147OFSW](/sequence-files/IGVFFI8147OFSW/), [IGVFFI9661BDQV](/sequence-files/IGVFFI9661BDQV/), [IGVFFI3552EGOZ](/sequence-files/IGVFFI3552EGOZ/), [IGVFFI1524KFMZ](/sequence-files/IGVFFI1524KFMZ/), [IGVFFI5050ATJO](/sequence-files/IGVFFI5050ATJO/), [IGVFFI0656FDKC](/sequence-files/IGVFFI0656FDKC/), [IGVFFI4945EXXK](/sequence-files/IGVFFI4945EXXK/) 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/IGVFDS9863HSXN/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS9863HSXN](/measurement-sets/IGVFDS9863HSXN/) has sequence file(s): [IGVFFI7532ZSCO](/sequence-files/IGVFFI7532ZSCO/), [IGVFFI7436BYIV](/sequence-files/IGVFFI7436BYIV/), [IGVFFI7694ETEW](/sequence-files/IGVFFI7694ETEW/), [IGVFFI4617GQYB](/sequence-files/IGVFFI4617GQYB/), [IGVFFI0041XXQU](/sequence-files/IGVFFI0041XXQU/), [IGVFFI2310ZZRD](/sequence-files/IGVFFI2310ZZRD/), [IGVFFI5302SGSX](/sequence-files/IGVFFI5302SGSX/), [IGVFFI5377THVW](/sequence-files/IGVFFI5377THVW/), [IGVFFI6631VCMV](/sequence-files/IGVFFI6631VCMV/), [IGVFFI8969IASQ](/sequence-files/IGVFFI8969IASQ/), [IGVFFI5714KUXS](/sequence-files/IGVFFI5714KUXS/), [IGVFFI9248ETIY](/sequence-files/IGVFFI9248ETIY/), [IGVFFI9697YQGS](/sequence-files/IGVFFI9697YQGS/), [IGVFFI3324UWBJ](/sequence-files/IGVFFI3324UWBJ/), [IGVFFI4682FKDO](/sequence-files/IGVFFI4682FKDO/), [IGVFFI3363KKCB](/sequence-files/IGVFFI3363KKCB/), [IGVFFI3965EOPY](/sequence-files/IGVFFI3965EOPY/), [IGVFFI9648GXOY](/sequence-files/IGVFFI9648GXOY/), [IGVFFI6877PKHJ](/sequence-files/IGVFFI6877PKHJ/), [IGVFFI9858XMHP](/sequence-files/IGVFFI9858XMHP/), [IGVFFI9273EMJS](/sequence-files/IGVFFI9273EMJS/), [IGVFFI8750AHMN](/sequence-files/IGVFFI8750AHMN/), [IGVFFI8617WYAM](/sequence-files/IGVFFI8617WYAM/), [IGVFFI7409DIRH](/sequence-files/IGVFFI7409DIRH/), [IGVFFI7901XAWI](/sequence-files/IGVFFI7901XAWI/), [IGVFFI8147OFSW](/sequence-files/IGVFFI8147OFSW/), [IGVFFI9661BDQV](/sequence-files/IGVFFI9661BDQV/), [IGVFFI3552EGOZ](/sequence-files/IGVFFI3552EGOZ/), [IGVFFI1524KFMZ](/sequence-files/IGVFFI1524KFMZ/), [IGVFFI5050ATJO](/sequence-files/IGVFFI5050ATJO/), [IGVFFI0656FDKC](/sequence-files/IGVFFI0656FDKC/), [IGVFFI4945EXXK](/sequence-files/IGVFFI4945EXXK/) 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/IGVFDS9863HSXN/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM6795SCHR](/in-vitro-systems/IGVFSM6795SCHR/) 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/IGVFSM6795SCHR/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM6795SCHR](/in-vitro-systems/IGVFSM6795SCHR/) 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/IGVFSM6795SCHR/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS9863HSXN](/measurement-sets/IGVFDS9863HSXN/) 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/IGVFDS9863HSXN/"
}
]
},
"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": "2024-11-22T00:47:17.411321+00:00",
"donors": [
{
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"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": "IGVFFI7532ZSCO",
"aliases": [
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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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},
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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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"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2024-11-22T05:47:27.412032+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": "884a2802-3e38-4149-bf6b-5465eb62c3c4"
}