{
"@context": "/terms/",
"@id": "/auxiliary-sets/IGVFDS3935KLZM/",
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"FileSet",
"Item"
],
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],
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing sequence specification",
"detail": "Auxiliary set [IGVFDS3935KLZM](/auxiliary-sets/IGVFDS3935KLZM/) has sequence file(s): [IGVFFI2377VWZT](/sequence-files/IGVFFI2377VWZT/), [IGVFFI2423WEED](/sequence-files/IGVFFI2423WEED/), [IGVFFI6850GWCF](/sequence-files/IGVFFI6850GWCF/) which do not have any `seqspecs`. Sequence files in a file set are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/auxiliary-sets/IGVFDS3935KLZM/"
}
]
},
"award": {
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"component": "functional characterization",
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"title": "Jay Shendure"
},
"title": "Massively parallel characterization of variants and elements impacting transcriptional regulation in dynamic cellular systems"
},
"control_for": [],
"creation_timestamp": "2023-12-08T23:52:38.335154+00:00",
"donors": [
{
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"accession": "IGVFDO3898MNLZ",
"aliases": [
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],
"sex": "male",
"status": "released",
"taxa": "Mus musculus"
}
],
"file_set_type": "quantification DNA barcode sequencing",
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{
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"aliases": [
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],
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"controlled_access": false,
"creation_timestamp": "2023-12-09T00:52:29.329559+00:00",
"file_format": "fastq",
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"s3_uri": "s3://igvf-files/2023/12/09/a0c4d0a2-ea80-4d11-9a6e-6919c51c5234/IGVFFI2377VWZT.fastq.gz",
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"upload_status": "validated"
},
{
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"accession": "IGVFFI2423WEED",
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"creation_timestamp": "2023-12-09T00:52:30.397638+00:00",
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"href": "/sequence-files/IGVFFI2423WEED/@@download/IGVFFI2423WEED.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/09/618f886a-8deb-4eb3-8d55-8a201dea3ad6/IGVFFI2423WEED.fastq.gz",
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"status": "released",
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},
{
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"creation_timestamp": "2023-12-09T00:52:27.992048+00:00",
"file_format": "fastq",
"file_size": 280811787,
"href": "/sequence-files/IGVFFI6850GWCF/@@download/IGVFFI6850GWCF.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/09/7d752f08-e06a-47cb-a93a-643d20c62d2b/IGVFFI6850GWCF.fastq.gz",
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"status": "released",
"submitted_file_name": "/net/shendure/vol8/projects/JBL/GEO_sc_rep_fastqs_nobackup/geo_submission_20221108/bulkMPRA_devCRE_mEBs/bulk_MPRA_mEB_series_mBC_rep2B1_d08_DNA_R1_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS2622CKLA/"
],
"lab": {
"@id": "/labs/jay-shendure/",
"title": "Jay Shendure, UW"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS0571IOSL/",
"accession": "IGVFDS0571IOSL",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_RNA_day8_reads"
],
"preferred_assay_title": "MPRA",
"status": "released"
}
],
"publications": [
{
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"publication_identifiers": [
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"PMID:38724692"
],
"status": "released"
}
],
"release_timestamp": "2024-06-27T00:41:18.671151+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM0091UGGN/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM0091UGGN",
"aliases": [
"jay-shendure:dev_CRE_mEBs_rep2B_part1_bulk_day8"
],
"cell_fate_change_treatments": [
"/treatments/9acc7857-c9dd-4b4a-a78b-fdf10c8ae679/"
],
"classifications": [
"differentiated cell specimen"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS7655GRFI/"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"@type": [
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"OntologyTerm",
"Item"
],
"status": "released",
"summary": "mouse embryonic stem cell",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 8 days, male, Mus musculus WD44 transfected with a reporter library",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"status": "released",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
}
],
"schema_version": "12",
"status": "released",
"submitted_by": {
"@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
"title": "Beth Martin"
},
"submitted_files_timestamp": "2023-12-09T00:52:27.992048+00:00",
"summary": "quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci",
"uuid": "d923e592-8ef8-49b6-9e36-f4b3ef715fe8"
}