{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM1838CFFU/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1838CFFU",
"age": "unknown",
"aliases": [
"charles-gersbach:jurkats-in-vitro-system-crispra-vp64x2-il2ra-low-bin-rep1"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released construct library set [IGVFDS8183QSJO](/construct-library-sets/IGVFDS8183QSJO/) has in progress subobject tabular file [IGVFFI3477BKFD](/tabular-files/IGVFFI3477BKFD/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/construct-library-sets/IGVFDS8183QSJO/"
}
],
"WARNING": [
{
"category": "missing files",
"detail": "Construct library set [IGVFDS8183QSJO](/construct-library-sets/IGVFDS8183QSJO/) has no `files`. File sets are expected to have files.",
"level": 40,
"level_name": "WARNING",
"name": "audit_no_files",
"path": "/construct-library-sets/IGVFDS8183QSJO/"
}
]
},
"award": {
"@id": "/awards/HG012053/",
"component": "functional characterization"
},
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS8183QSJO/",
"accession": "IGVFDS8183QSJO",
"file_set_type": "guide library"
}
],
"creation_timestamp": "2023-11-08T19:29:44.507750+00:00",
"demultiplexed_to": [],
"donors": [
"/human-donors/IGVFDO9862HFWL/"
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS4586UCAI/",
"accession": "IGVFDS4586UCAI",
"aliases": [
"charles-gersbach:jurkats-measurement-set-crispra-vp64x2-il2ra-low-bin-rep1"
],
"file_set_type": "experimental data",
"lab": {
"title": "Charles Gersbach, Duke"
},
"preferred_assay_title": "CRISPR FACS screen",
"status": "released",
"summary": "CRISPR activation FACS screen integrating a guide (sgRNA) library targeting transcription start sites in IL2RA"
},
{
"@id": "/auxiliary-sets/IGVFDS8113ANRK/",
"accession": "IGVFDS8113ANRK",
"aliases": [
"charles-gersbach:jurkats-auxiliary-set-crispra-vp64x2-il2ra-low-bin-rep1"
],
"file_set_type": "gRNA sequencing",
"lab": {
"title": "Charles Gersbach, Duke"
},
"status": "released",
"summary": "gRNA sequencing for CRISPR activation FACS screen integrating a guide (sgRNA) library targeting transcription start sites in IL2RA"
},
{
"@id": "/curated-sets/IGVFDS3467ONBF/",
"accession": "IGVFDS3467ONBF",
"aliases": [
"charles-gersbach:jurkat-il2ra-grnas-set"
],
"file_set_type": "guide RNAs",
"lab": {
"title": "Charles Gersbach, Duke"
},
"status": "in progress",
"summary": "Homo sapiens GRCh38 custom guide RNAs"
},
{
"@id": "/analysis-sets/IGVFDS5218AVPW/",
"accession": "IGVFDS5218AVPW",
"aliases": [
"charles-gersbach:jurkats-intermediate-analysis-crispra-vp64x2-il2ra"
],
"file_set_type": "intermediate analysis",
"lab": {
"title": "Charles Gersbach, Duke"
},
"status": "released",
"summary": "CRISPR activation FACS screen targeting IL2RA: alignments"
},
{
"@id": "/analysis-sets/IGVFDS7196OWBU/",
"accession": "IGVFDS7196OWBU",
"aliases": [
"charles-gersbach:jurkats-analysis-set-crispra-vp64x2-il2ra"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Charles Gersbach, Duke"
},
"status": "released",
"summary": "CRISPR activation FACS screen targeting IL2RA: fold change over control, guide quantifications"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/charles-gersbach/",
"title": "Charles Gersbach, Duke"
},
"modifications": [
{
"@id": "/crispr-modifications/4c532ce1-11aa-41be-9757-13923c19248b/",
"cas": "dCas9",
"cas_species": "Staphylococcus aureus (Sa)",
"fused_domain": "2xVP64",
"modality": "activation",
"status": "released",
"summary": "CRISPRa Sa-dCas9-2xVP64"
}
],
"moi": 0.4,
"multiplexed_in": [],
"notes": "The \"classification\" of this in vitro system was moved into the array property \"classifications.\" This sample's modifications originally included Modification /modifications/8c0f2c0a-c2c0-4d14-98fc-e1551c72667c/ which was deleted and replaced with a Crispr Modification igvf:replacement_of_8c0f2c0a-c2c0-4d14-98fc-e1551c72667c.",
"nucleic_acid_delivery": "lentiviral transduction",
"origin_of": [],
"parts": [],
"pooled_in": [],
"publications": [
{
"@id": "/publications/6cc80a53-4ca1-4bd4-9942-f0f335b7ec20/",
"publication_identifiers": [
"PMID:37945901",
"doi:10.1038/s41588-023-01554-0",
"PMCID:PMC10703699"
]
}
],
"release_timestamp": "2024-11-18T21:08:59.159354+00:00",
"sample_terms": [
{
"@id": "/sample-terms/EFO_0002796/",
"term_name": "Jurkat"
}
],
"schema_version": "23",
"sex": "unspecified",
"sorted_fractions": [],
"sorted_from": {
"@id": "/in-vitro-systems/IGVFSM6178KGGZ/",
"accession": "IGVFSM6178KGGZ"
},
"sorted_from_detail": "FACS bin for 0-10% expression of IL2RA ",
"sources": [
{
"@id": "/sources/stem-cell-technologies/",
"title": "STEMCELL Technologies"
}
],
"status": "released",
"submitted_by": {
"@id": "/users/29f5f78d-ac90-421e-90c6-a90e1dc407a7/",
"title": "Alejandro Barrera"
},
"summary": "Jurkat cell line, Homo sapiens (sorting details: FACS bin for 0-10% expression of IL2RA ) modified with CRISPRa Sa-dCas9-2xVP64, transduced (lentivirus) with a guide library (MOI of 0.4)",
"taxa": "Homo sapiens",
"uuid": "ed44da6b-4735-40e2-b463-81b186d22207",
"virtual": false
}