{
"@context": "/terms/",
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"Item"
],
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],
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{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS7726TKVM](/measurement-sets/IGVFDS7726TKVM/) has sequence file(s): [IGVFFI2425XTMX](/sequence-files/IGVFFI2425XTMX/), [IGVFFI5482JSAI](/sequence-files/IGVFFI5482JSAI/), [IGVFFI5345GISM](/sequence-files/IGVFFI5345GISM/), [IGVFFI6230TTPL](/sequence-files/IGVFFI6230TTPL/), [IGVFFI1705WIMN](/sequence-files/IGVFFI1705WIMN/), [IGVFFI2233RYBD](/sequence-files/IGVFFI2233RYBD/), [IGVFFI1101JPGV](/sequence-files/IGVFFI1101JPGV/), [IGVFFI0075XVWE](/sequence-files/IGVFFI0075XVWE/), [IGVFFI5915KYZE](/sequence-files/IGVFFI5915KYZE/), [IGVFFI5790EQEV](/sequence-files/IGVFFI5790EQEV/), [IGVFFI7012CRIM](/sequence-files/IGVFFI7012CRIM/), [IGVFFI0554VROH](/sequence-files/IGVFFI0554VROH/), [IGVFFI0906YFKO](/sequence-files/IGVFFI0906YFKO/), [IGVFFI7757LXQQ](/sequence-files/IGVFFI7757LXQQ/), [IGVFFI5884ADIK](/sequence-files/IGVFFI5884ADIK/) which do not have any `seqspecs`. Sequence files in a file set are expected to link to a sequence specification file.",
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"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS7726TKVM/"
},
{
"category": "missing sequence specification",
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},
{
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"submitted_file_name": "/oak/stanford/groups/engreitz/Users/kangh/TeloHAEC_Perturb-seq_2kG/210616_Broad_fastq/scRNAseq_2kG_2PMDox2_6_c_GTGATCGA_L001_R2_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS7943IIWZ/"
],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"notes": "The readout 86015c12-b9a6-43ba-9601-5d75aab4d39c was removed from this measurement set.",
"preferred_assay_title": "Perturb-seq",
"protocols": [
"https://www.protocols.io/view/systematic-perturb-seq-to-discover-endothelial-cel-261ged73yv47/v1"
],
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM9689NFEU/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM9689NFEU",
"aliases": [
"jesse-engreitz:in_vitro_systems-scRNAseq_2kG_2PMDox2_6"
],
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS1298TUYG/",
"accession": "IGVFDS1298TUYG",
"file_set_type": "guide library",
"status": "preview",
"summary": "guide (sgRNA) library targeting genes in many genomic loci"
}
],
"modifications": [
{
"@id": "/crispr-modifications/b4bc725a-8eeb-4180-9789-bece3516c0c1/",
"modality": "interference",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/NTR_0000753/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:TeloHAEC"
],
"status": "released",
"summary": "TeloHAEC",
"term_name": "TeloHAEC"
}
],
"status": "preview",
"summary": "TeloHAEC cell line, female, Homo sapiens modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
"taxa": "Homo sapiens"
}
],
"schema_version": "23",
"status": "preview",
"submitted_by": {
"@id": "/users/05fa0dc9-0e33-427c-9d1f-82393edc4a03/",
"title": "Helen Kang"
},
"submitted_files_timestamp": "2023-12-21T00:35:10.939481+00:00",
"summary": "CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting genes in many genomic loci",
"uuid": "a8b437a1-4cee-4253-85dc-2589aeccdce7"
}