{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS3851BRIR/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS3851BRIR",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-BioRep1-FFRep2-BinC_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 [IGVFDS3851BRIR](/measurement-sets/IGVFDS3851BRIR/) has sequence file(s) [IGVFFI4681JJQU](/sequence-files/IGVFFI4681JJQU/), [IGVFFI6019KBPU](/sequence-files/IGVFFI6019KBPU/), [IGVFFI9263UIPQ](/sequence-files/IGVFFI9263UIPQ/), [IGVFFI9354LEAI](/sequence-files/IGVFFI9354LEAI/), [IGVFFI4453WUWY](/sequence-files/IGVFFI4453WUWY/), [IGVFFI2031WQUS](/sequence-files/IGVFFI2031WQUS/), [IGVFFI2811LZOB](/sequence-files/IGVFFI2811LZOB/), [IGVFFI5465RPHE](/sequence-files/IGVFFI5465RPHE/), [IGVFFI7555JFRV](/sequence-files/IGVFFI7555JFRV/), [IGVFFI0164SMWZ](/sequence-files/IGVFFI0164SMWZ/), [IGVFFI6394DTCB](/sequence-files/IGVFFI6394DTCB/), [IGVFFI8201TUVA](/sequence-files/IGVFFI8201TUVA/), [IGVFFI3999OLAN](/sequence-files/IGVFFI3999OLAN/), [IGVFFI3898SMKF](/sequence-files/IGVFFI3898SMKF/), [IGVFFI4261ECFC](/sequence-files/IGVFFI4261ECFC/), [IGVFFI0313MOJT](/sequence-files/IGVFFI0313MOJT/), [IGVFFI2531IHCY](/sequence-files/IGVFFI2531IHCY/), [IGVFFI3750LJQP](/sequence-files/IGVFFI3750LJQP/), [IGVFFI2376MHTK](/sequence-files/IGVFFI2376MHTK/), [IGVFFI5196UNTE](/sequence-files/IGVFFI5196UNTE/), [IGVFFI2891YIVE](/sequence-files/IGVFFI2891YIVE/), [IGVFFI8635EGSK](/sequence-files/IGVFFI8635EGSK/), [IGVFFI8591ZVJA](/sequence-files/IGVFFI8591ZVJA/), [IGVFFI6528INGJ](/sequence-files/IGVFFI6528INGJ/), [IGVFFI7436SVLH](/sequence-files/IGVFFI7436SVLH/), [IGVFFI5631RIVN](/sequence-files/IGVFFI5631RIVN/), [IGVFFI3232TPKL](/sequence-files/IGVFFI3232TPKL/), [IGVFFI4267JLLE](/sequence-files/IGVFFI4267JLLE/), [IGVFFI7555TWUS](/sequence-files/IGVFFI7555TWUS/), [IGVFFI0105IKHF](/sequence-files/IGVFFI0105IKHF/), [IGVFFI4975MKQI](/sequence-files/IGVFFI4975MKQI/), [IGVFFI1970PISO](/sequence-files/IGVFFI1970PISO/) 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/IGVFDS3851BRIR/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS3851BRIR](/measurement-sets/IGVFDS3851BRIR/) has sequence file(s): [IGVFFI4681JJQU](/sequence-files/IGVFFI4681JJQU/), [IGVFFI6019KBPU](/sequence-files/IGVFFI6019KBPU/), [IGVFFI9263UIPQ](/sequence-files/IGVFFI9263UIPQ/), [IGVFFI9354LEAI](/sequence-files/IGVFFI9354LEAI/), [IGVFFI4453WUWY](/sequence-files/IGVFFI4453WUWY/), [IGVFFI2031WQUS](/sequence-files/IGVFFI2031WQUS/), [IGVFFI2811LZOB](/sequence-files/IGVFFI2811LZOB/), [IGVFFI5465RPHE](/sequence-files/IGVFFI5465RPHE/), [IGVFFI7555JFRV](/sequence-files/IGVFFI7555JFRV/), [IGVFFI0164SMWZ](/sequence-files/IGVFFI0164SMWZ/), [IGVFFI6394DTCB](/sequence-files/IGVFFI6394DTCB/), [IGVFFI8201TUVA](/sequence-files/IGVFFI8201TUVA/), [IGVFFI3999OLAN](/sequence-files/IGVFFI3999OLAN/), [IGVFFI3898SMKF](/sequence-files/IGVFFI3898SMKF/), [IGVFFI4261ECFC](/sequence-files/IGVFFI4261ECFC/), [IGVFFI0313MOJT](/sequence-files/IGVFFI0313MOJT/), [IGVFFI2531IHCY](/sequence-files/IGVFFI2531IHCY/), [IGVFFI3750LJQP](/sequence-files/IGVFFI3750LJQP/), [IGVFFI2376MHTK](/sequence-files/IGVFFI2376MHTK/), [IGVFFI5196UNTE](/sequence-files/IGVFFI5196UNTE/), [IGVFFI2891YIVE](/sequence-files/IGVFFI2891YIVE/), [IGVFFI8635EGSK](/sequence-files/IGVFFI8635EGSK/), [IGVFFI8591ZVJA](/sequence-files/IGVFFI8591ZVJA/), [IGVFFI6528INGJ](/sequence-files/IGVFFI6528INGJ/), [IGVFFI7436SVLH](/sequence-files/IGVFFI7436SVLH/), [IGVFFI5631RIVN](/sequence-files/IGVFFI5631RIVN/), [IGVFFI3232TPKL](/sequence-files/IGVFFI3232TPKL/), [IGVFFI4267JLLE](/sequence-files/IGVFFI4267JLLE/), [IGVFFI7555TWUS](/sequence-files/IGVFFI7555TWUS/), [IGVFFI0105IKHF](/sequence-files/IGVFFI0105IKHF/), [IGVFFI4975MKQI](/sequence-files/IGVFFI4975MKQI/), [IGVFFI1970PISO](/sequence-files/IGVFFI1970PISO/) 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/IGVFDS3851BRIR/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM8079DJVX](/in-vitro-systems/IGVFSM8079DJVX/) 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/IGVFSM8079DJVX/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM8079DJVX](/in-vitro-systems/IGVFSM8079DJVX/) 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/IGVFSM8079DJVX/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS3851BRIR](/measurement-sets/IGVFDS3851BRIR/) 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/IGVFDS3851BRIR/"
}
]
},
"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": "2024-11-22T00:47:29.504703+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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},
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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": "2024-11-22T05:48:26.388536+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": "c0fad0f9-ca8f-4775-aecd-d2d55688b050"
}