{
"@context": "/terms/",
"@id": "/in-vitro-systems/IGVFSM5166XVRM/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM5166XVRM",
"age": "unknown",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_day8"
],
"audit": {
"WARNING": [
{
"category": "missing files",
"detail": "Construct library set [IGVFDS7655GRFI](/construct-library-sets/IGVFDS7655GRFI/) has no `files`. File sets are expected to have files.",
"level": 40,
"level_name": "WARNING",
"name": "audit_no_files",
"path": "/construct-library-sets/IGVFDS7655GRFI/"
}
]
},
"award": {
"@id": "/awards/HG011966/",
"component": "functional characterization"
},
"cell_fate_change_treatments": [
{
"@id": "/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/",
"purpose": "differentiation",
"status": "released",
"summary": "Depletion of Leukemia inhibitory factor",
"treatment_type": "protein"
}
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS7655GRFI/",
"accession": "IGVFDS7655GRFI",
"file_set_type": "reporter library",
"status": "released"
}
],
"creation_timestamp": "2023-12-02T00:01:34.503248+00:00",
"demultiplexed_to": [],
"donors": [
"/rodent-donors/IGVFDO3898MNLZ/"
],
"file_sets": [
{
"@id": "/auxiliary-sets/IGVFDS9488YMYJ/",
"accession": "IGVFDS9488YMYJ",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_DNA_day8_reads"
],
"file_set_type": "quantification DNA barcode sequencing",
"lab": {
"title": "Jay Shendure, UW"
},
"status": "released",
"summary": "quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci"
},
{
"@id": "/measurement-sets/IGVFDS2172PVLM/",
"accession": "IGVFDS2172PVLM",
"aliases": [
"jay-shendure:dev_CRE_mEBs_repB_bulk_RNA_day8_reads"
],
"file_set_type": "experimental data",
"lab": {
"title": "Jay Shendure, UW"
},
"preferred_assay_title": "MPRA",
"status": "released",
"summary": "MPRA integrating a reporter library targeting accessible genome regions in many genomic loci"
},
{
"@id": "/analysis-sets/IGVFDS2622CKLA/",
"accession": "IGVFDS2622CKLA",
"aliases": [
"jay-shendure:analysis_set_scQers_mEBs_bulk"
],
"file_set_type": "principal analysis",
"lab": {
"title": "Jay Shendure, UW"
},
"status": "released",
"summary": "MPRA: element quantifications"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/jay-shendure/",
"title": "Jay Shendure, UW"
},
"multiplexed_in": [],
"notes": "The \"classification\" of this in vitro system was moved into the array property \"classifications.\"",
"origin_of": [],
"originated_from": {
"@id": "/in-vitro-systems/IGVFSM3228TEOC/",
"accession": "IGVFSM3228TEOC",
"status": "released"
},
"parts": [],
"pooled_in": [],
"publications": [
{
"@id": "/publications/398edd7f-1ebb-40a0-a04b-450a2565667c/",
"publication_identifiers": [
"doi:10.1038/s41592-024-02260-3",
"PMID:38724692"
],
"status": "released"
}
],
"release_timestamp": "2024-06-27T00:41:16.512738+00:00",
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"status": "released",
"term_name": "mouse embryonic stem cell"
}
],
"schema_version": "23",
"sex": "male",
"sorted_fractions": [],
"sources": [
{
"@id": "/sources/christine-disteche/",
"status": "released",
"title": "Christine Disteche, UW"
}
],
"status": "released",
"submitted_by": {
"@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
"title": "Beth Martin"
},
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 8 days, male, Mus musculus WD44 transfected with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"status": "released",
"term_name": "embryoid body"
},
"taxa": "Mus musculus",
"time_post_change": 8,
"time_post_change_units": "day",
"uuid": "6b70e6da-cd02-4a89-a39a-783e22e384fc",
"virtual": false
}