{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM6858FUVX/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM6858FUVX",
"age": "unknown",
"aliases": [
"jesse-engreitz:220829_8merInsertion-Jurkat_NoStimulation-Amp_PPIF_promoter-BioRep2-FFrep1-BinA_idan"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Archived in vitro system [IGVFSM6858FUVX](/in-vitro-systems/IGVFSM6858FUVX/) has in progress subobject sample term [EFO_0002796](/sample-terms/EFO_0002796/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM6858FUVX/"
},
{
"category": "mismatched status",
"detail": "Archived in vitro system [IGVFSM6858FUVX](/in-vitro-systems/IGVFSM6858FUVX/) has in progress subobject source [atcc](/sources/atcc/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM6858FUVX/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing plasmid map",
"detail": "Construct library set [IGVFDS7068CPID](/construct-library-sets/IGVFDS7068CPID/) does not have a plasmid map attached in `documents`. Construct library sets are expected to be associated with a plasmid map document.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_construct_library_set_plasmid_map",
"path": "/construct-library-sets/IGVFDS7068CPID/"
},
{
"category": "missing guide RNA sequences",
"detail": "Construct library set [IGVFDS7068CPID](/construct-library-sets/IGVFDS7068CPID/) has no `integrated_content_files`. Guide libraries are expected to link to an integrated content file of guide RNA sequences.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_integrated_content_files",
"path": "/construct-library-sets/IGVFDS7068CPID/"
}
],
"WARNING": [
{
"category": "missing files",
"detail": "Construct library set [IGVFDS7068CPID](/construct-library-sets/IGVFDS7068CPID/) has no `files`. File sets are expected to have files.",
"level": 40,
"level_name": "WARNING",
"name": "audit_no_files",
"path": "/construct-library-sets/IGVFDS7068CPID/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS7068CPID/",
"accession": "IGVFDS7068CPID",
"file_set_type": "guide library"
}
],
"creation_timestamp": "2024-03-29T01:00:33.691598+00:00",
"demultiplexed_to": [],
"donors": [
"/human-donors/IGVFDO1080XFGV/"
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS5518TESD/",
"accession": "IGVFDS5518TESD",
"aliases": [
"jesse-engreitz:220829_8merInsertion-Jurkat_NoStimulation-Amp_PPIF_promoter-BioRep2-FFrep1-BinA_AmpliconSequencing_idan"
],
"file_set_type": "experimental data",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"preferred_assay_title": "Variant-EFFECTS",
"status": "released",
"summary": "prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus"
},
{
"@id": "/analysis-sets/IGVFDS7216VESH/",
"accession": "IGVFDS7216VESH",
"file_set_type": "principal analysis",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"status": "in progress",
"summary": "interference, prime editing Variant-EFFECTS"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"modifications": [
{
"@id": "/crispr-modifications/84486717-53c5-477a-bff0-e686dc38d8a7/",
"cas": "nCas9",
"cas_species": "Streptococcus pyogenes (Sp)",
"fused_domain": "M-MLV RT (PE2)",
"modality": "prime editing",
"status": "released",
"summary": "CRISPR prime editing Sp-nCas9-M-MLV RT (PE2)"
}
],
"multiplexed_in": [],
"notes": "The \"classification\" of this in vitro system was moved into the array property \"classifications.\"",
"origin_of": [],
"parts": [],
"pooled_in": [],
"release_timestamp": "2024-03-22T23:04:37.145369+00:00",
"sample_terms": [
{
"@id": "/sample-terms/EFO_0002796/",
"term_name": "Jurkat"
}
],
"schema_version": "23",
"sex": "male",
"sorted_fractions": [],
"sources": [
{
"@id": "/sources/atcc/",
"title": "ATCC"
}
],
"status": "archived",
"submitted_by": {
"@id": "/users/98fb23d3-0d79-4c3d-981d-01539e6589f1/",
"title": "Idan Gabdank"
},
"summary": "Jurkat cell line, male, Homo sapiens modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library",
"taxa": "Homo sapiens",
"uuid": "441a8bed-db6b-4eb2-9306-c9dd6b857238",
"virtual": false
}