{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM8157SSTV/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM8157SSTV",
"age": "unknown",
"aliases": [
"richard-sherwood:18loci_uptake_Rep3_top20_ivs"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM8157SSTV](/in-vitro-systems/IGVFSM8157SSTV/) has in progress subobject construct library set [IGVFDS5242VHWM](/construct-library-sets/IGVFDS5242VHWM/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM8157SSTV/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM8157SSTV](/in-vitro-systems/IGVFSM8157SSTV/) has in progress subobject crispr modification [464b468a-3a69-4880-96b1-3a5efa246118](/crispr-modifications/464b468a-3a69-4880-96b1-3a5efa246118/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM8157SSTV/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing associated phenotypes",
"detail": "Construct library set [IGVFDS5242VHWM](/construct-library-sets/IGVFDS5242VHWM/) has phenotype-associated variants listed in its `selection_criteria`, but no phenotype term specified in `associated_phenotypes`. Construct library sets with a selection criteria of phenotype-associated variants are expected to have associated phenotype(s).",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_construct_library_set_associated_phenotypes",
"path": "/construct-library-sets/IGVFDS5242VHWM/"
},
{
"category": "missing plasmid map",
"detail": "Construct library set [IGVFDS5242VHWM](/construct-library-sets/IGVFDS5242VHWM/) 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/IGVFDS5242VHWM/"
}
]
},
"award": {
"@id": "/awards/HG012010/",
"component": "functional characterization"
},
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS5242VHWM/",
"accession": "IGVFDS5242VHWM",
"file_set_type": "guide library",
"status": "in progress"
}
],
"creation_timestamp": "2024-11-20T19:57:30.724527+00:00",
"demultiplexed_to": [],
"description": "Sorted for Top 20% LDL-C uptake",
"donors": [
{
"@id": "/human-donors/IGVFDO2837BRET/",
"accession": "IGVFDO2837BRET",
"status": "released"
}
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS2333QYKL/",
"accession": "IGVFDS2333QYKL",
"aliases": [
"richard-sherwood:18loci_uptake_Rep3_top20_ms"
],
"file_set_type": "experimental data",
"lab": {
"title": "Richard Sherwood, Brigham and Women's Hospital"
},
"preferred_assay_title": "CRISPR FACS screen",
"status": "released",
"summary": "CRISPR base editing FACS screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide"
},
{
"@id": "/analysis-sets/IGVFDS0021NCLH/",
"accession": "IGVFDS0021NCLH",
"aliases": [
"richard-sherwood:18loci_ABE_LDLuptake_bean_analysis_set"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Richard Sherwood, Brigham and Women's Hospital"
},
"status": "released",
"summary": "CRISPR base editing FACS screen: guide quantifications, variant effects"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/richard-sherwood/",
"title": "Richard Sherwood, Brigham and Women's Hospital"
},
"modifications": [
{
"@id": "/crispr-modifications/464b468a-3a69-4880-96b1-3a5efa246118/",
"cas": "SpRY",
"cas_species": "Streptococcus pyogenes (Sp)",
"fused_domain": "ABE8e",
"modality": "base editing",
"status": "in progress",
"summary": "CRISPR base editing SpRY-ABE8e"
}
],
"moi": 0.5,
"multiplexed_in": [],
"nucleic_acid_delivery": "lentiviral transduction",
"origin_of": [],
"parts": [],
"pooled_in": [],
"release_timestamp": "2025-03-07T23:02:51.984771+00:00",
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001187/",
"status": "released",
"term_name": "HepG2"
}
],
"schema_version": "25",
"sex": "male",
"sorted_fractions": [],
"sorted_from": {
"@id": "/in-vitro-systems/IGVFSM3624LDJK/",
"accession": "IGVFSM3624LDJK",
"status": "released"
},
"sorted_from_detail": "Sorted for Top 20% LDL-C uptake",
"sources": [
{
"@id": "/labs/richard-sherwood/",
"status": "current",
"title": "Richard Sherwood, Brigham and Women's Hospital"
}
],
"status": "released",
"submitted_by": {
"@id": "/users/892d6eba-c6de-4b35-89ff-639c5c5390c9/",
"title": "Quang Vinh Phan"
},
"summary": "HepG2 cell line, male, Homo sapiens (sorting details: Sorted for Top 20% LDL-C uptake) modified with CRISPR base editing SpRY-ABE8e, transduced (lentivirus) with a guide library (MOI of 0.5)",
"taxa": "Homo sapiens",
"uuid": "8e55fc8c-fbb7-445a-8ae3-59fbbbc1dea1",
"virtual": false
}