{
"@context": "/terms/",
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"MeasurementSet",
"FileSet",
"Item"
],
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"aliases": [
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],
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"@id": "/assay-terms/OBI_0003109/",
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],
"status": "released",
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},
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released multiplexed sample [IGVFSM6797MDET](/multiplexed-samples/IGVFSM6797MDET/) has in progress subobject tabular file [IGVFFI4465NRTD](/tabular-files/IGVFFI4465NRTD/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/multiplexed-samples/IGVFSM6797MDET/"
},
{
"category": "missing publication",
"detail": "Multiplexed sample [IGVFSM6797MDET](/multiplexed-samples/IGVFSM6797MDET/) has no `publications`. Released and archived samples are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
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},
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000647](/sample-terms/NTR_0000647/) 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_0000647/"
},
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000750](/sample-terms/NTR_0000750/) 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_0000750/"
},
{
"category": "missing publication",
"detail": "Measurement set [IGVFDS0005ORLJ](/measurement-sets/IGVFDS0005ORLJ/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_file_set_missing_publication",
"path": "/measurement-sets/IGVFDS0005ORLJ/"
},
{
"category": "mismatched status",
"detail": "Released measurement set [IGVFDS0005ORLJ](/measurement-sets/IGVFDS0005ORLJ/) has in progress subobject tabular file [IGVFFI2591OFQO](/tabular-files/IGVFFI2591OFQO/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/measurement-sets/IGVFDS0005ORLJ/"
},
{
"category": "mismatched status",
"detail": "Released measurement set [IGVFDS0005ORLJ](/measurement-sets/IGVFDS0005ORLJ/) has in progress subobject tabular file [IGVFFI1138MCVX](/tabular-files/IGVFFI1138MCVX/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/measurement-sets/IGVFDS0005ORLJ/"
},
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000751](/sample-terms/NTR_0000751/) 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_0000751/"
},
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000646](/sample-terms/NTR_0000646/) 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_0000646/"
}
]
},
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"title": "Ali Mortazavi"
},
"title": "Center for Mouse Genomic Variation at Single Cell Resolution"
},
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"creation_timestamp": "2023-10-05T00:01:12.878552+00:00",
"data_use_limitation_summaries": [
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],
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{
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{
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{
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"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI3459PNAV/",
"accession": "IGVFFI3459PNAV",
"content_type": "seqspec",
"creation_timestamp": "2024-09-16T17:16:11.926042+00:00",
"file_format": "yaml",
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"href": "/configuration-files/IGVFFI3459PNAV/@@download/IGVFFI3459PNAV.yaml.gz",
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"status": "released",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI4006VOGM/",
"accession": "IGVFFI4006VOGM",
"content_type": "seqspec",
"creation_timestamp": "2024-09-16T17:16:14.422360+00:00",
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"file_size": 1350,
"href": "/configuration-files/IGVFFI4006VOGM/@@download/IGVFFI4006VOGM.yaml.gz",
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"s3_uri": "s3://igvf-files/2024/09/16/9118daef-e59b-4e75-a15e-d3c880f7d85e/IGVFFI4006VOGM.yaml.gz",
"status": "released",
"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI0274KKNI/",
"accession": "IGVFFI0274KKNI",
"content_type": "seqspec",
"creation_timestamp": "2024-09-16T17:16:15.603432+00:00",
"file_format": "yaml",
"file_size": 1351,
"href": "/configuration-files/IGVFFI0274KKNI/@@download/IGVFFI0274KKNI.yaml.gz",
"md5sum": "db42ee146f65ef1931273a691d744f53",
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"status": "released",
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}
],
"input_for": [
"/analysis-sets/IGVFDS7932BIYS/"
],
"lab": {
"@id": "/labs/ali-mortazavi/",
"title": "Ali Mortazavi, UCI"
},
"notes": "Preferred_assay_titles enum Parse Split-seq has been renamed to be Parse SPLiT-seq.",
"onlist_files": [
"/tabular-files/IGVFFI2591OFQO/",
"/tabular-files/IGVFFI1138MCVX/"
],
"onlist_method": "multi",
"preferred_assay_title": "Parse SPLiT-seq",
"protocols": [
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-flash-froz-eq2lyj17rlx9/v1",
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-flash-froz-dm6gp3zedvzp/v2",
"https://www.protocols.io/view/evercode-wt-mega-v2-2-1-8epv5xxrng1b/v1",
"https://www.protocols.io/view/evercode-single-index-pcr-5jyl82k9rl2w/v1"
],
"release_timestamp": "2025-04-18T22:22:15.174134+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM6797MDET/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM6797MDET",
"aliases": [
"ali-mortazavi:subpool_003_67L"
],
"cellular_sub_pool": "003_67L",
"classifications": [
"tissue",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [],
"modifications": [],
"sample_terms": [
{
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"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "left cerebral cortex",
"term_name": "left cerebral cortex"
},
{
"@id": "/sample-terms/NTR_0000647/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "right cerebral cortex",
"term_name": "right cerebral cortex"
},
{
"@id": "/sample-terms/NTR_0000750/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "left hippocampal formation",
"term_name": "left hippocampal formation"
},
{
"@id": "/sample-terms/NTR_0000751/",
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"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "right hippocampal formation",
"term_name": "right hippocampal formation"
},
{
"@id": "/sample-terms/UBERON_0000948/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "heart",
"term_name": "heart"
}
],
"status": "released",
"summary": "multiplexed sample: Mus musculus NZO/H1LtJ (male, 69 days) left hippocampal formation tissue; Mus musculus 129S1J (male, 72 days) left hippocampal formation tissue; ... and 190 more samples",
"taxa": "Mus musculus",
"treatments": []
}
],
"schema_version": "26",
"sequencing_library_types": [
"mRNA enriched"
],
"status": "released",
"strand_specificity": "5 prime to 3 prime",
"submitted_by": {
"@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
"title": "Diane Trout"
},
"submitted_files_timestamp": "2023-10-05T12:36:55.544923+00:00",
"summary": "Parse SPLiT-seq",
"uuid": "a3a19c76-d9c3-48f4-8310-8913ef1e83d1"
}