{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM0340TUAL/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0340TUAL",
"age": "unknown",
"aliases": [
"guillaume-lettre:BP_screen_KRAB_L_R4_1_ivs"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM0340TUAL](/in-vitro-systems/IGVFSM0340TUAL/) has in progress subobject construct library set [IGVFDS3175SLZT](/construct-library-sets/IGVFDS3175SLZT/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM0340TUAL/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM0340TUAL](/in-vitro-systems/IGVFSM0340TUAL/) has in progress subobject crispr modification [dca41650-4b6d-4685-b9c0-6c003f2d872a](/crispr-modifications/dca41650-4b6d-4685-b9c0-6c003f2d872a/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM0340TUAL/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM0340TUAL](/in-vitro-systems/IGVFSM0340TUAL/) has in progress subobject construct library set [IGVFDS2633QETV](/construct-library-sets/IGVFDS2633QETV/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM0340TUAL/"
},
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000753](/sample-terms/NTR_0000753/) has been newly requested. Ontology terms with a newly requested term ID are expected to have it updated following its addition to the appropriate ontology database.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_ntr_term_id",
"path": "/sample-terms/NTR_0000753/"
},
{
"category": "missing sequence specification",
"detail": "Construct library set [IGVFDS3175SLZT](/construct-library-sets/IGVFDS3175SLZT/) has sequence file(s): [IGVFFI7751BOEV](/sequence-files/IGVFFI7751BOEV/), [IGVFFI3904ETQG](/sequence-files/IGVFFI3904ETQG/) which do not have any `seqspecs`. Sequence files in a file set associated with bulk data are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/construct-library-sets/IGVFDS3175SLZT/"
},
{
"category": "missing sequence specification",
"detail": "Construct library set [IGVFDS2633QETV](/construct-library-sets/IGVFDS2633QETV/) has sequence file(s): [IGVFFI5610FSCJ](/sequence-files/IGVFFI5610FSCJ/), [IGVFFI8815XCZM](/sequence-files/IGVFFI8815XCZM/) which do not have any `seqspecs`. Sequence files in a file set associated with bulk data are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/construct-library-sets/IGVFDS2633QETV/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing plasmid map",
"detail": "Construct library set [IGVFDS3175SLZT](/construct-library-sets/IGVFDS3175SLZT/) 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/IGVFDS3175SLZT/"
},
{
"category": "missing plasmid map",
"detail": "Construct library set [IGVFDS2633QETV](/construct-library-sets/IGVFDS2633QETV/) 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/IGVFDS2633QETV/"
}
]
},
"award": {
"@id": "/awards/HG012010/",
"component": "functional characterization"
},
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS2633QETV/",
"accession": "IGVFDS2633QETV",
"associated_phenotypes": [
{
"@id": "/phenotype-terms/EFO_0004325/",
"status": "released",
"term_name": "blood pressure"
}
],
"file_set_type": "guide library",
"status": "in progress"
},
{
"@id": "/construct-library-sets/IGVFDS3175SLZT/",
"accession": "IGVFDS3175SLZT",
"associated_phenotypes": [
{
"@id": "/phenotype-terms/EFO_0004325/",
"status": "released",
"term_name": "blood pressure"
}
],
"file_set_type": "guide library",
"status": "in progress"
}
],
"creation_timestamp": "2024-11-15T19:57:00.400866+00:00",
"demultiplexed_to": [],
"donors": [
{
"@id": "/human-donors/IGVFDO3459DFTW/",
"accession": "IGVFDO3459DFTW",
"status": "released"
}
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS1395QABS/",
"accession": "IGVFDS1395QABS",
"aliases": [
"guillaume-lettre:BP_screen_KRAB_L_R4_1_ms"
],
"file_set_type": "experimental data",
"lab": {
"title": "Guillaume Lettre, MHI"
},
"preferred_assay_title": "CRISPR FlowFISH screen",
"status": "released",
"summary": "CRISPR interference FlowFISH screen sorted on the expression of NFKBIA integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide associated with blood pressure"
},
{
"@id": "/analysis-sets/IGVFDS9277CKPG/",
"accession": "IGVFDS9277CKPG",
"aliases": [
"guillaume-lettre:BP_mageck_KRAB_flowfish_analysis_set"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Guillaume Lettre, MHI"
},
"status": "in progress",
"summary": "CRISPR interference FlowFISH screen, Proliferation CRISPR interference screen"
},
{
"@id": "/analysis-sets/IGVFDS4240QGIJ/",
"accession": "IGVFDS4240QGIJ",
"aliases": [
"guillaume-lettre:BP_KRAB_analysis_set"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Guillaume Lettre, MHI"
},
"status": "in progress",
"summary": "CRISPR interference FlowFISH screen, Proliferation CRISPR interference screen targeting NFKBIA: guide quantifications"
},
{
"@id": "/analysis-sets/IGVFDS8141XEJE/",
"accession": "IGVFDS8141XEJE",
"aliases": [
"guillaume-lettre:BP_KRAB_flowfish_analysis_set"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Guillaume Lettre, MHI"
},
"status": "released",
"summary": "CRISPR interference FlowFISH screen, Proliferation CRISPR interference screen targeting NFKBIA: guide quantifications"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/guillaume-lettre/",
"title": "Guillaume Lettre, MHI"
},
"modifications": [
{
"@id": "/crispr-modifications/dca41650-4b6d-4685-b9c0-6c003f2d872a/",
"cas": "dCas9",
"cas_species": "Streptococcus pyogenes (Sp)",
"fused_domain": "KOX1-KRAB",
"modality": "interference",
"status": "in progress",
"summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
}
],
"multiplexed_in": [],
"nucleic_acid_delivery": "lentiviral transduction",
"origin_of": [],
"parts": [],
"pooled_in": [],
"release_timestamp": "2025-03-07T23:02:46.050416+00:00",
"sample_terms": [
{
"@id": "/sample-terms/NTR_0000753/",
"status": "released",
"term_name": "TeloHAEC"
}
],
"schema_version": "25",
"sex": "female",
"sorted_fractions": [],
"sorted_from": {
"@id": "/in-vitro-systems/IGVFSM1983GROH/",
"accession": "IGVFSM1983GROH",
"status": "released"
},
"sorted_from_detail": "FACS 20-40% expression of NFKBIA",
"sources": [
{
"@id": "/labs/guillaume-lettre/",
"status": "current",
"title": "Guillaume Lettre, MHI"
}
],
"status": "released",
"submitted_by": {
"@id": "/users/005a9a1c-02ab-408f-90a9-d6bea5c36d05/",
"title": "Ken Sin Lo"
},
"summary": "TeloHAEC cell line, female, Homo sapiens (sorting details: FACS 20-40% expression of NFKBIA) modified with CRISPRi Sp-dCas9-KOX1-KRAB, transduced (lentivirus) with a guide library",
"taxa": "Homo sapiens",
"uuid": "90b64b98-1bfb-4cf0-ab41-90b6fa0b1c1f",
"virtual": false
}