{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM3700IHHL/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3700IHHL",
"age": "23",
"age_units": "year",
"aliases": [
"jesse-engreitz:in_vitro_systems-scRNAseq_2kG_2PMDox1_4"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Preview construct library set [IGVFDS1298TUYG](/construct-library-sets/IGVFDS1298TUYG/) has in progress subobject tabular file [IGVFFI9754AGFB](/tabular-files/IGVFFI9754AGFB/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/construct-library-sets/IGVFDS1298TUYG/"
},
{
"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/"
}
],
"WARNING": [
{
"category": "missing files",
"detail": "Construct library set [IGVFDS1298TUYG](/construct-library-sets/IGVFDS1298TUYG/) has no `files`. File sets are expected to have files.",
"level": 40,
"level_name": "WARNING",
"name": "audit_no_files",
"path": "/construct-library-sets/IGVFDS1298TUYG/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS1298TUYG/",
"accession": "IGVFDS1298TUYG",
"file_set_type": "guide library",
"status": "preview"
}
],
"creation_timestamp": "2024-01-18T03:01:01.025433+00:00",
"demultiplexed_to": [],
"donors": [
"/human-donors/IGVFDO3459DFTW/"
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS0562EWQF/",
"accession": "IGVFDS0562EWQF",
"aliases": [
"jesse-engreitz:measurement_set-scRNAseq_2kG_2PMDox1_4"
],
"file_set_type": "experimental data",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"preferred_assay_title": "Perturb-seq",
"status": "preview",
"summary": "CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting genes in many genomic loci"
},
{
"@id": "/auxiliary-sets/IGVFDS7065BOZB/",
"accession": "IGVFDS7065BOZB",
"aliases": [
"jesse-engreitz:auxiliary_sets-scRNAseq_2kG_2PMDox1_4"
],
"file_set_type": "gRNA sequencing",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"status": "preview",
"summary": "gRNA sequencing for CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting genes in many genomic loci"
},
{
"@id": "/analysis-sets/IGVFDS7943IIWZ/",
"accession": "IGVFDS7943IIWZ",
"aliases": [
"jesse-engreitz:analysis_set_TeloHAEC_Perturb-seq_2kG"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Jesse Engreitz, Stanford"
},
"status": "preview",
"summary": "interference Perturb-seq"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"lower_bound_age": 23,
"lower_bound_age_in_hours": 201480,
"modifications": [
{
"@id": "/crispr-modifications/b4bc725a-8eeb-4180-9789-bece3516c0c1/",
"cas": "dCas9",
"cas_species": "Streptococcus pyogenes (Sp)",
"fused_domain": "KOX1-KRAB",
"modality": "interference",
"status": "released",
"summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
}
],
"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/2ba01755-df67-453b-b047-f7cdba236665/ which was deleted and replaced with a Crispr Modification igvf:replacement_of_2ba01755-df67-453b-b047-f7cdba236665.",
"origin_of": [],
"part_of": "/in-vitro-systems/IGVFSM9056OSKC/",
"parts": [],
"pooled_in": [],
"sample_terms": [
{
"@id": "/sample-terms/NTR_0000753/",
"status": "released",
"term_name": "TeloHAEC"
}
],
"schema_version": "23",
"sex": "female",
"sorted_fractions": [],
"sources": [
{
"@id": "/labs/jesse-engreitz/",
"status": "current",
"title": "Jesse Engreitz, Stanford"
}
],
"status": "preview",
"submitted_by": {
"@id": "/users/05fa0dc9-0e33-427c-9d1f-82393edc4a03/",
"title": "Helen Kang"
},
"summary": "TeloHAEC cell line, female, Homo sapiens modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
"taxa": "Homo sapiens",
"upper_bound_age": 23,
"upper_bound_age_in_hours": 201480,
"uuid": "a47a3f19-906d-435b-bccc-af2dccc0b4b8",
"virtual": false
}