{
"@context": "/terms/",
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"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS9445YYVB",
"aliases": [
"ali-mortazavi:B01_13H_nanopore"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003109/",
"term_name": "single-nucleus RNA sequencing assay"
},
"audit": {
"INTERNAL_ACTION": [
{
"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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{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS9445YYVB](/measurement-sets/IGVFDS9445YYVB/) has sequence file(s): [IGVFFI6266KZFK](/sequence-files/IGVFFI6266KZFK/), [IGVFFI6580APRO](/sequence-files/IGVFFI6580APRO/), [IGVFFI0601VPZV](/sequence-files/IGVFFI0601VPZV/), [IGVFFI6915KRKK](/sequence-files/IGVFFI6915KRKK/), [IGVFFI3221ZEPY](/sequence-files/IGVFFI3221ZEPY/), [IGVFFI6314VEIY](/sequence-files/IGVFFI6314VEIY/), [IGVFFI5646MVPY](/sequence-files/IGVFFI5646MVPY/), [IGVFFI5790OVZY](/sequence-files/IGVFFI5790OVZY/), [IGVFFI6238QMGL](/sequence-files/IGVFFI6238QMGL/), [IGVFFI2783NHJJ](/sequence-files/IGVFFI2783NHJJ/), [IGVFFI3448XIOT](/sequence-files/IGVFFI3448XIOT/), [IGVFFI5938USSN](/sequence-files/IGVFFI5938USSN/), [IGVFFI7995EHHB](/sequence-files/IGVFFI7995EHHB/), [IGVFFI4230BKLF](/sequence-files/IGVFFI4230BKLF/), [IGVFFI3766OUJU](/sequence-files/IGVFFI3766OUJU/), [IGVFFI7378FTOR](/sequence-files/IGVFFI7378FTOR/), [IGVFFI1864QUQG](/sequence-files/IGVFFI1864QUQG/), [IGVFFI5928VRYG](/sequence-files/IGVFFI5928VRYG/), [IGVFFI9935UOGM](/sequence-files/IGVFFI9935UOGM/), [IGVFFI9066CRFG](/sequence-files/IGVFFI9066CRFG/) which do not have any `seqspecs`. Sequence files in a file set are expected to link to a sequence specification file.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS9445YYVB/"
}
],
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{
"category": "missing analysis",
"detail": "Measurement set [IGVFDS9445YYVB](/measurement-sets/IGVFDS9445YYVB/) is a raw data set with files, but is not listed in any `input_file_sets` for any analysis sets. Raw data sets with files are expected to be associated with at least one analysis set.",
"level": 40,
"level_name": "WARNING",
"name": "audit_input_file_set_for",
"path": "/measurement-sets/IGVFDS9445YYVB/"
}
]
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},
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"@id": "/sequence-files/IGVFFI9066CRFG/",
"accession": "IGVFFI9066CRFG",
"content_type": "reads",
"creation_timestamp": "2024-04-30T22:44:59.780712+00:00",
"file_format": "fastq",
"file_size": 4119036637,
"href": "/sequence-files/IGVFFI9066CRFG/@@download/IGVFFI9066CRFG.fastq.gz",
"s3_uri": "s3://igvf-files/2024/04/30/6bf1ad7f-3545-426f-8691-6e16053b1619/IGVFFI9066CRFG.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008633/",
"term_name": "ONT GridION X5"
},
"submitted_file_name": "igvf_b01/nanopore/igvfb01_13H_lig-ss_7.fastq.gz",
"upload_status": "validated"
}
],
"input_file_set_for": [],
"lab": {
"@id": "/labs/ali-mortazavi/",
"title": "Ali Mortazavi, UCI"
},
"preferred_assay_title": "Parse SPLiT-seq",
"protocols": [
"https://www.protocols.io/view/evercode-wt-v2-2-1-eq2lyj9relx9/v1",
"https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-cryopreser-4r3l22y2pl1y/v1",
"https://www.protocols.io/view/ont-library-prep-for-split-seq-cdna-eq2lyj1xmlx9/v1"
],
"release_timestamp": "2024-05-08T23:38:43.612976+00:00",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM2294BOOU/",
"@type": [
"MultiplexedSample",
"Sample",
"Item"
],
"accession": "IGVFSM2294BOOU",
"aliases": [
"ali-mortazavi:subpool_b01_13h"
],
"classifications": [
"multiplexed sample"
],
"construct_library_sets": [],
"disease_terms": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/NTR_0000646/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"status": "released",
"summary": "left cerebral cortex",
"term_name": "left cerebral cortex"
}
],
"status": "released",
"summary": "multiplexed sample: left cerebral cortex tissue, female, Mus musculus CASTJ (72 days); left cerebral cortex tissue, male, Mus musculus B6J (72 days); ... and 6 more samples",
"treatments": []
}
],
"schema_version": "21",
"sequencing_library_types": [
"mRNA enriched"
],
"status": "released",
"submitted_by": {
"@id": "/users/ebd1025b-e3ab-4e51-bfcd-1415f278281a/",
"title": "Diane Trout"
},
"submitted_files_timestamp": "2024-04-30T16:57:02.198133+00:00",
"summary": "Parse SPLiT-seq",
"uuid": "350328b1-3426-42c6-a4eb-de66913b84ee"
}