{
"@context": "/terms/",
"@id": "/multiplexed-samples/IGVFSM3106AWHF/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM3106AWHF",
"aliases": [
"ansuman-satpathy:multiplexed_sample_igvf5_10x4"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM4881LGZU](/in-vitro-systems/IGVFSM4881LGZU/) 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": "/in-vitro-systems/IGVFSM4881LGZU/"
},
{
"category": "missing publication",
"detail": "Multiplexed sample [IGVFSM3106AWHF](/multiplexed-samples/IGVFSM3106AWHF/) 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/IGVFSM3106AWHF/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM3582GMMA](/in-vitro-systems/IGVFSM3582GMMA/) 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": "/in-vitro-systems/IGVFSM3582GMMA/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM1522VQTB](/in-vitro-systems/IGVFSM1522VQTB/) 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": "/in-vitro-systems/IGVFSM1522VQTB/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM1920AEQT](/in-vitro-systems/IGVFSM1920AEQT/) 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": "/in-vitro-systems/IGVFSM1920AEQT/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM4412BPZJ](/in-vitro-systems/IGVFSM4412BPZJ/) 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": "/in-vitro-systems/IGVFSM4412BPZJ/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM0612UJUB](/in-vitro-systems/IGVFSM0612UJUB/) 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": "/in-vitro-systems/IGVFSM0612UJUB/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM6046NPSA](/in-vitro-systems/IGVFSM6046NPSA/) 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": "/in-vitro-systems/IGVFSM6046NPSA/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM5649NHVT](/in-vitro-systems/IGVFSM5649NHVT/) 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": "/in-vitro-systems/IGVFSM5649NHVT/"
}
]
},
"award": {
"@id": "/awards/HG012076/",
"component": "mapping"
},
"barcode_map": "/tabular-files/IGVFFI9514YCRW/",
"biomarkers": [],
"classifications": [
"cell line",
"differentiated cell specimen",
"gastruloid",
"multiplexed sample"
],
"creation_timestamp": "2024-07-21T23:33:53.786049+00:00",
"disease_terms": [],
"donors": [
{
"@id": "/human-donors/IGVFDO1183RRBM/",
"accession": "IGVFDO1183RRBM",
"status": "released"
},
{
"@id": "/human-donors/IGVFDO1756PPKO/",
"accession": "IGVFDO1756PPKO",
"ethnicities": [
"Japanese"
],
"status": "released"
},
{
"@id": "/human-donors/IGVFDO2718IDDQ/",
"accession": "IGVFDO2718IDDQ",
"status": "released"
},
{
"@id": "/human-donors/IGVFDO6638HIAD/",
"accession": "IGVFDO6638HIAD",
"status": "released"
}
],
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS3184KNYJ/",
"accession": "IGVFDS3184KNYJ",
"aliases": [
"ansuman-satpathy:snRNA-seq_igvf5_10x4"
],
"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/IGVFDS3303TULU/",
"accession": "IGVFDS3303TULU",
"aliases": [
"ansuman-satpathy:multiseq_igvf5_10x4"
],
"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/IGVFDS1201SHMG/",
"accession": "IGVFDS1201SHMG",
"aliases": [
"ansuman-satpathy:snATAC-seq_igvf5_10x4"
],
"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/IGVFDS3764KYTT/",
"accession": "IGVFDS3764KYTT",
"aliases": [
"ansuman-satpathy:igvf5_analysis_set_10x4"
],
"file_set_type": "intermediate analysis",
"lab": {
"title": "Ansuman Satpathy, Stanford"
},
"status": "released",
"summary": "single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)"
}
],
"institutional_certificates": [
{
"@id": "/institutional-certificates/42937768-65a6-47ee-9d4c-6d3829c7f279/",
"certificate_identifier": "IP115-03",
"controlled_access": false,
"data_use_limitation_summary": "No limitations",
"status": "released"
},
{
"@id": "/institutional-certificates/e5598331-9e7c-4bd5-8e7b-64d5a4529006/",
"certificate_identifier": "IP115-21",
"controlled_access": false,
"data_use_limitation_summary": "No limitations",
"status": "released"
},
{
"@id": "/institutional-certificates/e7a2058d-80fb-46ee-be82-c4d8b26d01ec/",
"certificate_identifier": "IP115-08",
"controlled_access": false,
"data_use_limitation_summary": "No limitations",
"status": "released"
},
{
"@id": "/institutional-certificates/eaf8c672-701d-4aee-9108-8d64c472d20e/",
"certificate_identifier": "IP115-14",
"controlled_access": false,
"data_use_limitation_summary": "No limitations",
"status": "released"
}
],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"modifications": [],
"multiplexed_in": [],
"multiplexed_samples": [
{
"@id": "/in-vitro-systems/IGVFSM1920AEQT/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1920AEQT",
"donors": [
{
"@id": "/human-donors/IGVFDO6638HIAD/",
"accession": "IGVFDO6638HIAD",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003042/",
"status": "released",
"term_name": "H1-hESC"
}
],
"status": "released",
"summary": "Homo sapiens (male) H1-hESC induced to gastrula for 2 days"
},
{
"@id": "/in-vitro-systems/IGVFSM6046NPSA/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM6046NPSA",
"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/IGVFSM0612UJUB/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0612UJUB",
"donors": [
{
"@id": "/human-donors/IGVFDO2718IDDQ/",
"accession": "IGVFDO2718IDDQ",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "released",
"summary": "Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days"
},
{
"@id": "/in-vitro-systems/IGVFSM1522VQTB/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1522VQTB",
"donors": [
{
"@id": "/human-donors/IGVFDO2718IDDQ/",
"accession": "IGVFDO2718IDDQ",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "released",
"summary": "Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days"
},
{
"@id": "/in-vitro-systems/IGVFSM5649NHVT/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM5649NHVT",
"donors": [
{
"@id": "/human-donors/IGVFDO2718IDDQ/",
"accession": "IGVFDO2718IDDQ",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "released",
"summary": "Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 11 days"
},
{
"@id": "/in-vitro-systems/IGVFSM4881LGZU/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM4881LGZU",
"donors": [
{
"@id": "/human-donors/IGVFDO2718IDDQ/",
"accession": "IGVFDO2718IDDQ",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
}
],
"status": "released",
"summary": "Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 20 days"
},
{
"@id": "/in-vitro-systems/IGVFSM3582GMMA/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3582GMMA",
"donors": [
{
"@id": "/human-donors/IGVFDO1183RRBM/",
"accession": "IGVFDO1183RRBM",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001184/",
"status": "released",
"term_name": "HEK293T"
}
],
"status": "released",
"summary": "Homo sapiens (female) HEK293T cell line"
},
{
"@id": "/in-vitro-systems/IGVFSM4412BPZJ/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM4412BPZJ",
"donors": [
{
"@id": "/human-donors/IGVFDO1183RRBM/",
"accession": "IGVFDO1183RRBM",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001184/",
"status": "released",
"term_name": "HEK293T"
}
],
"status": "released",
"summary": "Homo sapiens (female) HEK293T cell line"
}
],
"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": "2025-03-07T01:12:07.992437+00:00",
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001184/",
"status": "released",
"term_name": "HEK293T"
},
{
"@id": "/sample-terms/EFO_0003042/",
"status": "released",
"term_name": "H1-hESC"
},
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
},
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"schema_version": "10",
"sorted_fractions": [],
"sources": [
{
"@id": "/labs/danwei-huangfu/",
"status": "current",
"title": "Danwei Huangfu, MSKCC"
},
{
"@id": "/labs/doug-fowler/",
"status": "current",
"title": "Doug Fowler, UW"
},
{
"@id": "/labs/gary-hon/",
"status": "current",
"title": "Gary Hon, UT"
},
{
"@id": "/labs/nadav-ahituv/",
"status": "current",
"title": "Nadav Ahituv, UCSF"
}
],
"status": "released",
"submitted_by": {
"@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
"title": "Christopher Mcginnis"
},
"summary": "multiplexed sample: Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days; Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days; ... and 6 more samples",
"taxa": "Homo sapiens",
"treatments": [],
"uuid": "32002c16-5f51-428d-b56f-fdea51d117a1",
"virtual": false
}