{
"@context": "/terms/",
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"FileSet",
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],
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],
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{
"category": "missing publication",
"detail": "In vitro system [IGVFSM7883WOIS](/in-vitro-systems/IGVFSM7883WOIS/) 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/IGVFSM7883WOIS/"
},
{
"category": "missing publication",
"detail": "Prediction set [IGVFDS0257SDNV](/prediction-sets/IGVFDS0257SDNV/) 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": "/prediction-sets/IGVFDS0257SDNV/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing analysis step version",
"detail": "Prediction set [IGVFDS0257SDNV](/prediction-sets/IGVFDS0257SDNV/) links to file(s) [IGVFFI7272QBOC](/tabular-files/IGVFFI7272QBOC/) that are missing `analysis_step_version`. Analysis set and prediction set files are expected to specify analysis step version.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_file_set_files_missing_analysis_step_version",
"path": "/prediction-sets/IGVFDS0257SDNV/"
}
]
},
"award": {
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"component": "predictive modeling",
"contact_pi": {
"@id": "/users/42adfdcc-7ff1-4c2a-b9af-d424c71c6e5a/",
"title": "Andrew Allen"
},
"title": "Design, prediction, and prioritization of systematic perturbations of the human genome"
},
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"creation_timestamp": "2024-03-20T21:19:52.402945+00:00",
"data_use_limitation_summaries": [
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],
"description": "Predictions of mutation effect at every base in ENCODE cCREs across hg38.",
"file_set_type": "functional effect",
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"aliases": [
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],
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"creation_timestamp": "2024-03-20T21:23:21.770938+00:00",
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"href": "/tabular-files/IGVFFI1236SEPK/@@download/IGVFFI1236SEPK.bed.gz",
"md5sum": "7f35494fc7eb8708d3875ffe216ee376",
"s3_uri": "s3://igvf-files/2024/03/20/abc9531b-06e8-4d66-b543-5d8caad72cdd/IGVFFI1236SEPK.tsv.gz",
"status": "archived",
"submitted_file_name": "/data/reddylab/Alex/IGVF/data_submissions/raw_data/predictive_modeling/ver3-effects-all-filtered-min0.1.spdi.v2.bed.gz",
"upload_status": "validated"
},
{
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],
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"creation_timestamp": "2024-03-20T21:27:13.484343+00:00",
"derived_from": [
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],
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"status": "archived",
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"upload_status": "validated"
}
],
"input_file_sets": [
"/model-sets/IGVFDS3627LKSF/",
"/curated-sets/IGVFDS4146YLZU/"
],
"input_for": [],
"lab": {
"@id": "/labs/bill-majoros/",
"title": "Bill Majoros, Duke"
},
"large_scale_loci_list": {
"@id": "/reference-files/IGVFFI3932HEZL/",
"accession": "IGVFFI3932HEZL",
"aliases": [
"igvf:cCRE_v3"
],
"status": "released"
},
"release_timestamp": "2025-01-08T18:48:12.539808+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM7883WOIS/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM7883WOIS",
"aliases": [
"andrew-allen:bluestarr-k562-in-vitro-system"
],
"classifications": [
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],
"institutional_certificates": [],
"sample_terms": [
{
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"@type": [
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"Item"
],
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],
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"summary": "K562",
"term_name": "K562"
}
],
"status": "released",
"summary": "virtual Homo sapiens (female) K562 cell line",
"taxa": "Homo sapiens"
}
],
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"scope": "loci",
"status": "archived",
"submitted_by": {
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"title": "Alejandro Barrera"
},
"submitted_files_timestamp": "2024-03-20T21:23:21.770938+00:00",
"submitter_comment": "This prediction set is superseded by IGVFDS2340WJRV, which is from a newer version of BlueSTARR.",
"summary": "functional effect prediction on scope of loci",
"uuid": "9eaf5b0f-4e58-42c9-82ce-df24c5345b27"
}