{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM6214ZWHT/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM6214ZWHT",
"age": "unknown",
"aliases": [
"jesse-engreitz:240908-S029-PPIF_5SpliceSite-IndividualVariantExp-AGGT_TCAG-THP1-BioRep1-FFrep2-FACS_Input"
],
"audit": {
"NOT_COMPLIANT": [
{
"category": "missing plasmid map",
"detail": "Construct library set [IGVFDS6555EOZU](/construct-library-sets/IGVFDS6555EOZU/) 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/IGVFDS6555EOZU/"
},
{
"category": "missing guide RNA sequences",
"detail": "Construct library set [IGVFDS6555EOZU](/construct-library-sets/IGVFDS6555EOZU/) 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/IGVFDS6555EOZU/"
}
],
"WARNING": [
{
"category": "missing files",
"detail": "Construct library set [IGVFDS6555EOZU](/construct-library-sets/IGVFDS6555EOZU/) has no `files`. File sets are expected to have files.",
"level": 40,
"level_name": "WARNING",
"name": "audit_no_files",
"path": "/construct-library-sets/IGVFDS6555EOZU/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS6555EOZU/",
"accession": "IGVFDS6555EOZU",
"file_set_type": "guide library",
"status": "preview"
}
],
"creation_timestamp": "2024-12-10T22:23:07.591971+00:00",
"demultiplexed_to": [],
"donors": [
"/human-donors/IGVFDO7359LVPI/"
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS9135QDMQ/",
"accession": "IGVFDS9135QDMQ",
"aliases": [
"jesse-engreitz:240908-S029-PPIF_5SpliceSite-IndividualVariantExp-AGGT_TCAG-THP1-BioRep1-FFrep2-FACS_Input_AmpliconSequencing"
],
"file_set_type": "experimental data",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"preferred_assay_title": "Variant-EFFECTS",
"status": "preview",
"summary": "CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus"
},
{
"@id": "/analysis-sets/IGVFDS8174BPPS/",
"accession": "IGVFDS8174BPPS",
"aliases": [
"jesse-engreitz:240908-S029-PPIF_5SpliceSite-IndividualVariantExp-AGGT_TCAG-THP1_Variant-EFFECTS_analysis"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"status": "preview",
"summary": "prime editing Variant-EFFECTS targeting PPIF: variant effects"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"modifications": [
{
"@id": "/crispr-modifications/fc6bc0b3-a064-47d0-b95d-a9af14bb1624/",
"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": [],
"origin_of": [],
"part_of": "/in-vitro-systems/IGVFSM2178GNQG/",
"parts": [],
"pooled_in": [],
"protocols": [
"https://www.protocols.io/view/flowfish-with-primeflow-36wgq3q4olk5/v1"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001253/",
"status": "released",
"term_name": "THP-1"
}
],
"schema_version": "23",
"sex": "male",
"sorted_fractions": [],
"sources": [
{
"@id": "/sources/atcc/",
"status": "released",
"title": "ATCC"
}
],
"status": "preview",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"summary": "THP-1 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": "2516a4c8-48ae-4050-b958-48fad31cc31a",
"virtual": false
}