{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS6913KQLF/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS6913KQLF",
"aliases": [
"jesse-engreitz:Jurkat_Stim-IL2RA_prom-BioRep2-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 [IGVFDS6913KQLF](/measurement-sets/IGVFDS6913KQLF/) has sequence file(s) [IGVFFI5384KXST](/sequence-files/IGVFFI5384KXST/), [IGVFFI9214AIZZ](/sequence-files/IGVFFI9214AIZZ/), [IGVFFI2517MGKL](/sequence-files/IGVFFI2517MGKL/), [IGVFFI4752UFOO](/sequence-files/IGVFFI4752UFOO/), [IGVFFI0288MKGU](/sequence-files/IGVFFI0288MKGU/), [IGVFFI7228BKFO](/sequence-files/IGVFFI7228BKFO/), [IGVFFI6037QFHO](/sequence-files/IGVFFI6037QFHO/), [IGVFFI2252ECWI](/sequence-files/IGVFFI2252ECWI/), [IGVFFI8050PZIJ](/sequence-files/IGVFFI8050PZIJ/), [IGVFFI6188YUUZ](/sequence-files/IGVFFI6188YUUZ/), [IGVFFI6573HPXI](/sequence-files/IGVFFI6573HPXI/), [IGVFFI1354XYFZ](/sequence-files/IGVFFI1354XYFZ/), [IGVFFI5979VKUM](/sequence-files/IGVFFI5979VKUM/), [IGVFFI4071KCJB](/sequence-files/IGVFFI4071KCJB/), [IGVFFI2949SJLU](/sequence-files/IGVFFI2949SJLU/), [IGVFFI3997RUTN](/sequence-files/IGVFFI3997RUTN/), [IGVFFI8451JNCT](/sequence-files/IGVFFI8451JNCT/), [IGVFFI6128XQYB](/sequence-files/IGVFFI6128XQYB/), [IGVFFI4812XTHA](/sequence-files/IGVFFI4812XTHA/), [IGVFFI8287RRZF](/sequence-files/IGVFFI8287RRZF/), [IGVFFI5373MJIJ](/sequence-files/IGVFFI5373MJIJ/), [IGVFFI5774CWPN](/sequence-files/IGVFFI5774CWPN/), [IGVFFI2072MARK](/sequence-files/IGVFFI2072MARK/), [IGVFFI9481TIDC](/sequence-files/IGVFFI9481TIDC/), [IGVFFI0550LNPQ](/sequence-files/IGVFFI0550LNPQ/), [IGVFFI3618RJIF](/sequence-files/IGVFFI3618RJIF/), [IGVFFI1956GSMI](/sequence-files/IGVFFI1956GSMI/), [IGVFFI6591DOLN](/sequence-files/IGVFFI6591DOLN/), [IGVFFI2383FHSC](/sequence-files/IGVFFI2383FHSC/), [IGVFFI5756CUET](/sequence-files/IGVFFI5756CUET/), [IGVFFI2421NQID](/sequence-files/IGVFFI2421NQID/), [IGVFFI6818SCHL](/sequence-files/IGVFFI6818SCHL/) 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/IGVFDS6913KQLF/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS6913KQLF](/measurement-sets/IGVFDS6913KQLF/) has sequence file(s): [IGVFFI5384KXST](/sequence-files/IGVFFI5384KXST/), [IGVFFI9214AIZZ](/sequence-files/IGVFFI9214AIZZ/), [IGVFFI2517MGKL](/sequence-files/IGVFFI2517MGKL/), [IGVFFI4752UFOO](/sequence-files/IGVFFI4752UFOO/), [IGVFFI0288MKGU](/sequence-files/IGVFFI0288MKGU/), [IGVFFI7228BKFO](/sequence-files/IGVFFI7228BKFO/), [IGVFFI6037QFHO](/sequence-files/IGVFFI6037QFHO/), [IGVFFI2252ECWI](/sequence-files/IGVFFI2252ECWI/), [IGVFFI8050PZIJ](/sequence-files/IGVFFI8050PZIJ/), [IGVFFI6188YUUZ](/sequence-files/IGVFFI6188YUUZ/), [IGVFFI6573HPXI](/sequence-files/IGVFFI6573HPXI/), [IGVFFI1354XYFZ](/sequence-files/IGVFFI1354XYFZ/), [IGVFFI5979VKUM](/sequence-files/IGVFFI5979VKUM/), [IGVFFI4071KCJB](/sequence-files/IGVFFI4071KCJB/), [IGVFFI2949SJLU](/sequence-files/IGVFFI2949SJLU/), [IGVFFI3997RUTN](/sequence-files/IGVFFI3997RUTN/), [IGVFFI8451JNCT](/sequence-files/IGVFFI8451JNCT/), [IGVFFI6128XQYB](/sequence-files/IGVFFI6128XQYB/), [IGVFFI4812XTHA](/sequence-files/IGVFFI4812XTHA/), [IGVFFI8287RRZF](/sequence-files/IGVFFI8287RRZF/), [IGVFFI5373MJIJ](/sequence-files/IGVFFI5373MJIJ/), [IGVFFI5774CWPN](/sequence-files/IGVFFI5774CWPN/), [IGVFFI2072MARK](/sequence-files/IGVFFI2072MARK/), [IGVFFI9481TIDC](/sequence-files/IGVFFI9481TIDC/), [IGVFFI0550LNPQ](/sequence-files/IGVFFI0550LNPQ/), [IGVFFI3618RJIF](/sequence-files/IGVFFI3618RJIF/), [IGVFFI1956GSMI](/sequence-files/IGVFFI1956GSMI/), [IGVFFI6591DOLN](/sequence-files/IGVFFI6591DOLN/), [IGVFFI2383FHSC](/sequence-files/IGVFFI2383FHSC/), [IGVFFI5756CUET](/sequence-files/IGVFFI5756CUET/), [IGVFFI2421NQID](/sequence-files/IGVFFI2421NQID/), [IGVFFI6818SCHL](/sequence-files/IGVFFI6818SCHL/) 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/IGVFDS6913KQLF/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM2330LAXQ](/in-vitro-systems/IGVFSM2330LAXQ/) 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/IGVFSM2330LAXQ/"
},
{
"category": "mismatched status",
"detail": "Preview in vitro system [IGVFSM2330LAXQ](/in-vitro-systems/IGVFSM2330LAXQ/) 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/IGVFSM2330LAXQ/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS6913KQLF](/measurement-sets/IGVFDS6913KQLF/) 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/IGVFDS6913KQLF/"
}
]
},
"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": [
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],
"status": "preview"
}
],
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"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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{
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"accession": "IGVFFI5384KXST",
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"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2024-11-22T06:34:40.517230+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": "58984b1c-7510-4980-8937-5305338ffa32"
}