{
"@context": "/terms/",
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"@type": [
"AuxiliarySet",
"FileSet",
"Item"
],
"accession": "IGVFDS9728LNRU",
"aliases": [
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR1_Rep1_S111",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR1_Rep2_S166",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR2_Rep1_S117",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR2_Rep2_S172",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR3_Rep1_S123",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR3_Rep2_S178",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR4_Rep1_S129",
"jesse-engreitz:auxiliary_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR4_Rep2_S184"
],
"audit": {
"NOT_COMPLIANT": [
{
"category": "missing sequencing kit",
"detail": "Auxiliary set [IGVFDS9728LNRU](/auxiliary-sets/IGVFDS9728LNRU/) has sequence file(s) [IGVFFI5075LZIL](/sequence-files/IGVFFI5075LZIL/), [IGVFFI9039RXBK](/sequence-files/IGVFFI9039RXBK/), [IGVFFI3563HVLI](/sequence-files/IGVFFI3563HVLI/), [IGVFFI2814SFWJ](/sequence-files/IGVFFI2814SFWJ/), [IGVFFI2985VSGE](/sequence-files/IGVFFI2985VSGE/), [IGVFFI7757VRPV](/sequence-files/IGVFFI7757VRPV/), [IGVFFI2289LZDO](/sequence-files/IGVFFI2289LZDO/), [IGVFFI8727LXUE](/sequence-files/IGVFFI8727LXUE/) which lack specification of a `sequencing_kit`. Sequence files should specify a sequencing kit.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_inconsistent_sequencing_kit",
"path": "/auxiliary-sets/IGVFDS9728LNRU/"
}
]
},
"award": {
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"component": "functional characterization",
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"title": "Jesse Engreitz"
},
"title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
},
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{
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"aliases": [
"igvf:donor_of_HCT116"
],
"sex": "male",
"status": "released",
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}
],
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"upload_status": "validated"
},
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},
{
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],
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"upload_status": "validated"
},
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"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2814SFWJ/",
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],
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"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI9696GNVY/",
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"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI3540RMKW/",
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"upload_status": "validated"
},
{
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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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"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS4544YEQM/"
],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS7182DGDS/",
"accession": "IGVFDS7182DGDS",
"aliases": [
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"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR1_Rep2_S166",
"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR2_Rep1_S117",
"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR2_Rep2_S172",
"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR3_Rep1_S123",
"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR3_Rep2_S178",
"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR4_Rep1_S129",
"jesse-engreitz:measurement_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR4_Rep2_S184"
],
"preferred_assay_title": "CRISPR FlowFISH screen"
}
],
"release_timestamp": "2024-07-10T20:20:47.096634+00:00",
"samples": [
{
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"@type": [
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"Biosample",
"Sample",
"Item"
],
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"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR1_Rep2_S166",
"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR2_Rep1_S117",
"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR2_Rep2_S172",
"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR3_Rep1_S123",
"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR3_Rep2_S178",
"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR4_Rep1_S129",
"jesse-engreitz:in-vitro-system_CRUDO_MYC-Auxin6hrs-FF1-BinA-PCR4_Rep2_S184"
],
"classifications": [
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],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7857SYCK/"
],
"modifications": [
{
"@id": "/degron-modifications/95081d1b-08b4-49ed-b324-e53fc43d8456/",
"modality": "degradation"
},
{
"@id": "/crispr-modifications/8543fa06-1720-4e7d-8e8f-7e24c1b1cf79/",
"modality": "interference"
}
],
"sample_terms": [
{
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"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:HCT116"
],
"status": "released",
"summary": "HCT116",
"term_name": "HCT116"
}
],
"status": "released",
"summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin A for 0-10% expression of MYC) treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours, modified with AID system targeting RAD21, CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
"taxa": "Homo sapiens",
"treatments": [
{
"@id": "/treatments/d35868d1-c45b-49ae-8ff3-a9c0c22551c2/",
"treatment_term_name": "5-Phenyl-1H-indole-3-acetic acid"
}
]
}
],
"schema_version": "11",
"status": "released",
"submitted_by": {
"@id": "/users/3bd6f74c-8cf3-4c35-a94d-0c7c11654815/",
"title": "Chongyon Park"
},
"submitted_files_timestamp": "2024-06-01T02:03:35.207316+00:00",
"summary": "gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci",
"uuid": "ed08e466-99f5-4449-9acb-815b1f78b529"
}