{
"@context": "/terms/",
"@id": "/multiplexed-samples/IGVFSM8594ZCZM/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM8594ZCZM",
"aliases": [
"ansuman-satpathy:multiplexed_sample_igvf4_10x1"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing publication",
"detail": "Multiplexed sample [IGVFSM8594ZCZM](/multiplexed-samples/IGVFSM8594ZCZM/) has no `publications`. Released and archived samples are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_sample_missing_publication",
"path": "/multiplexed-samples/IGVFSM8594ZCZM/"
}
]
},
"award": {
"@id": "/awards/HG012076/",
"component": "mapping"
},
"barcode_map": "/tabular-files/IGVFFI5089KDJD/",
"biomarkers": [],
"classifications": [
"cell line",
"multiplexed sample"
],
"creation_timestamp": "2024-07-21T23:21:24.273934+00:00",
"disease_terms": [],
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"ethnicities": [
"Japanese"
],
"status": "released"
}
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS9581AWPV/",
"accession": "IGVFDS9581AWPV",
"aliases": [
"ansuman-satpathy:snRNA-seq_igvf4_10x1"
],
"file_set_type": "experimental data",
"lab": {
"title": "Ansuman Satpathy, Stanford"
},
"preferred_assay_title": "10x multiome with MULTI-seq",
"status": "released",
"summary": "single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
},
{
"@id": "/auxiliary-sets/IGVFDS8226YTNI/",
"accession": "IGVFDS8226YTNI",
"aliases": [
"ansuman-satpathy:multiseq_igvf4_10x1"
],
"file_set_type": "lipid-conjugated oligo sequencing",
"lab": {
"title": "Ansuman Satpathy, Stanford"
},
"status": "released",
"summary": "lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
},
{
"@id": "/measurement-sets/IGVFDS2045SDGW/",
"accession": "IGVFDS2045SDGW",
"aliases": [
"ansuman-satpathy:snATAC-seq_igvf4_10x1"
],
"file_set_type": "experimental data",
"lab": {
"title": "Ansuman Satpathy, Stanford"
},
"preferred_assay_title": "10x multiome with MULTI-seq",
"status": "released",
"summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq)"
},
{
"@id": "/analysis-sets/IGVFDS2649QXJV/",
"accession": "IGVFDS2649QXJV",
"aliases": [
"ansuman-satpathy:igvf4_analysis_set",
"ansuman-satpathy:igvf4_analysis_set_10x1"
],
"file_set_type": "intermediate analysis",
"lab": {
"title": "Ansuman Satpathy, Stanford"
},
"status": "released",
"summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
}
],
"institutional_certificates": [
{
"@id": "/institutional-certificates/e5598331-9e7c-4bd5-8e7b-64d5a4529006/",
"certificate_identifier": "IP115-21",
"controlled_access": false,
"status": "released"
}
],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"modifications": [],
"multiplexed_in": [],
"multiplexed_samples": [
{
"@id": "/in-vitro-systems/IGVFSM4042UCFA/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM4042UCFA",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 100 ng/mL macrophage colony-stimulating factor 1 for 7 days"
},
{
"@id": "/in-vitro-systems/IGVFSM0397WQHG/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0397WQHG",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 100 ng/mL macrophage colony-stimulating factor 1 for 7 days"
},
{
"@id": "/in-vitro-systems/IGVFSM6359OJBP/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM6359OJBP",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 100 ng/mL macrophage colony-stimulating factor 1 for 7 days"
},
{
"@id": "/in-vitro-systems/IGVFSM2391BHAW/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM2391BHAW",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line"
},
{
"@id": "/in-vitro-systems/IGVFSM9933QXQZ/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM9933QXQZ",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line"
},
{
"@id": "/in-vitro-systems/IGVFSM6711UYDE/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM6711UYDE",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line"
},
{
"@id": "/in-vitro-systems/IGVFSM7286QOLW/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM7286QOLW",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 20 ng/mL interferon gamma for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM9107DMRM/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM9107DMRM",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 20 ng/mL interferon gamma for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM3620YSWS/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3620YSWS",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 20 ng/mL interferon gamma for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM0313SZJV/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0313SZJV",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 50 ng/mL interleukin 4 for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM5630VGYB/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM5630VGYB",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 50 ng/mL interleukin 4 for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM1346TDCO/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1346TDCO",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 50 ng/mL interleukin 4 for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM2030DVIY/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM2030DVIY",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 0.025 ng/mL acetylated low density lipoprotein for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM2683LYXN/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM2683LYXN",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 0.025 ng/mL acetylated low density lipoprotein for 1 day"
},
{
"@id": "/in-vitro-systems/IGVFSM3722NAUO/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3722NAUO",
"donors": [
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "Homo sapiens (male) GM25256 (WTC-11) cell line treated with 0.025 ng/mL acetylated low density lipoprotein for 1 day"
}
],
"multiplexing_methods": [
"barcode based"
],
"notes": "This object's multiplexing_methods has been set to barcode based by an upgrade. Please make sure it is correct before removing the notes.",
"origin_of": [],
"protocols": [
"https://www.protocols.io/view/multi-seq-for-multiome-igvf-round-2-experiment-1-dfqp3mvn"
],
"release_timestamp": "2025-03-07T01:11:26.112975+00:00",
"sample_terms": [
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"schema_version": "10",
"sorted_fractions": [],
"sources": [
{
"@id": "/labs/michael-bassik/",
"status": "current",
"title": "Michael Bassik, Stanford"
}
],
"status": "released",
"submitted_by": {
"@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
"title": "Christopher Mcginnis"
},
"summary": "multiplexed sample: Homo sapiens (male) GM25256 (WTC-11) cell line treated with 50 ng/mL interleukin 4 for 1 day; Homo sapiens (male) GM25256 (WTC-11) cell line treated with 100 ng/mL macrophage colony-stimulating factor 1 for 7 days; ... and 13 more samples",
"taxa": "Homo sapiens",
"treatments": [
{
"@id": "/treatments/2987f643-86dc-4113-af7e-d4b5d162b5c8/",
"depletion": false,
"purpose": "differentiation",
"status": "in progress",
"treatment_term_name": "acetylated low density lipoprotein",
"treatment_type": "chemical"
},
{
"@id": "/treatments/729630f8-aa05-47f5-9cba-ee7a264da593/",
"depletion": false,
"purpose": "differentiation",
"status": "in progress",
"treatment_term_name": "interleukin 4",
"treatment_type": "protein"
},
{
"@id": "/treatments/ae8065d2-85f3-498e-b4f2-01a38756d48e/",
"depletion": false,
"purpose": "differentiation",
"status": "in progress",
"treatment_term_name": "interferon gamma",
"treatment_type": "protein"
},
{
"@id": "/treatments/bec71d5e-97ef-489a-acb7-5336691b6c39/",
"depletion": false,
"purpose": "differentiation",
"status": "in progress",
"treatment_term_name": "macrophage colony-stimulating factor 1",
"treatment_type": "protein"
}
],
"uuid": "d09833ca-fb22-4000-8a3e-ef1263130d04",
"virtual": false
}