{
"@context": "/terms/",
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],
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],
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],
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},
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{
"category": "missing publication",
"detail": "Measurement set [IGVFDS1044PZYO](/measurement-sets/IGVFDS1044PZYO/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
"level": 30,
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"name": "audit_file_set_missing_publication",
"path": "/measurement-sets/IGVFDS1044PZYO/"
},
{
"category": "mismatched status",
"detail": "Released measurement set [IGVFDS1044PZYO](/measurement-sets/IGVFDS1044PZYO/) has in progress subobject tabular file [IGVFFI2591OFQO](/tabular-files/IGVFFI2591OFQO/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/measurement-sets/IGVFDS1044PZYO/"
},
{
"category": "mismatched status",
"detail": "Released measurement set [IGVFDS1044PZYO](/measurement-sets/IGVFDS1044PZYO/) has in progress subobject tabular file [IGVFFI1138MCVX](/tabular-files/IGVFFI1138MCVX/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
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"path": "/measurement-sets/IGVFDS1044PZYO/"
},
{
"category": "mismatched status",
"detail": "Released multiplexed sample [IGVFSM2299OLOC](/multiplexed-samples/IGVFSM2299OLOC/) has in progress subobject tabular file [IGVFFI4658LINI](/tabular-files/IGVFFI4658LINI/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/multiplexed-samples/IGVFSM2299OLOC/"
},
{
"category": "missing publication",
"detail": "Multiplexed sample [IGVFSM2299OLOC](/multiplexed-samples/IGVFSM2299OLOC/) 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",
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}
]
},
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"title": "Ali Mortazavi"
},
"title": "Center for Mouse Genomic Variation at Single Cell Resolution"
},
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"upload_status": "validated"
},
{
"@id": "/configuration-files/IGVFFI5878QXAB/",
"accession": "IGVFFI5878QXAB",
"content_type": "seqspec",
"creation_timestamp": "2024-09-17T23:00:13.028721+00:00",
"file_format": "yaml",
"file_size": 1348,
"href": "/configuration-files/IGVFFI5878QXAB/@@download/IGVFFI5878QXAB.yaml.gz",
"md5sum": "f164bce3c30b7c5560be042c5c28ef7a",
"s3_uri": "s3://igvf-files/2024/09/17/ad04eafc-a182-4361-8997-46e533f795a4/IGVFFI5878QXAB.yaml.gz",
"status": "released",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS6871VMUY/"
],
"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-36wgq3e3ylk5/v1",
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-flash-froz-n92ldm8b8l5b/v2",
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-flash-froz-5qpvo3837v4o/v1",
"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": "2025-04-19T00:14:02.278500+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM2299OLOC/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM2299OLOC",
"aliases": [
"ali-mortazavi:subpool_007_67B"
],
"cellular_sub_pool": "007_67B",
"classifications": [
"tissue",
"multiplexed sample"
],
"disease_terms": [],
"institutional_certificates": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/UBERON_0000007/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "pituitary gland",
"term_name": "pituitary gland"
},
{
"@id": "/sample-terms/UBERON_0000473/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "testis",
"term_name": "testis"
},
{
"@id": "/sample-terms/UBERON_0000992/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "ovary",
"term_name": "ovary"
},
{
"@id": "/sample-terms/UBERON_0000993/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "oviduct",
"term_name": "oviduct"
},
{
"@id": "/sample-terms/UBERON_0001301/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "epididymis",
"term_name": "epididymis"
},
{
"@id": "/sample-terms/UBERON_0001898/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "hypothalamus",
"term_name": "hypothalamus"
}
],
"status": "released",
"summary": "multiplexed sample: Mus musculus NOD/ShiLtJ (female, 72 days) pituitary gland tissue; Mus musculus CAST/EiJ (female, 69 days) pituitary gland tissue; ... and 254 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": "2023-10-10T04:30:44.183112+00:00",
"summary": "Parse SPLiT-seq",
"uuid": "14e8321c-052b-4215-b27a-c911ac2dab6e"
}