{
"@context": "/terms/",
"@id": "/auxiliary-sets/IGVFDS8402JLAZ/",
"@type": [
"AuxiliarySet",
"FileSet",
"Item"
],
"accession": "IGVFDS8402JLAZ",
"aliases": [
"jesse-engreitz:auxiliary_NOS3_CRISPRi_FF_R1_FFrep2_binD_PCR1_S124"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "NTR term ID",
"detail": "Sample term for [NTR_0000753](/sample-terms/NTR_0000753/) 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_0000753/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing sequence specification",
"detail": "Auxiliary set [IGVFDS8402JLAZ](/auxiliary-sets/IGVFDS8402JLAZ/) has sequence file(s): [IGVFFI5736WVKC](/sequence-files/IGVFFI5736WVKC/), [IGVFFI4316PRRZ](/sequence-files/IGVFFI4316PRRZ/), [IGVFFI6953TDNW](/sequence-files/IGVFFI6953TDNW/) 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": "/auxiliary-sets/IGVFDS8402JLAZ/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization",
"contact_pi": {
"@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
"title": "Jesse Engreitz"
},
"title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
},
"control_for": [],
"creation_timestamp": "2024-04-15T23:17:12.338092+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO3459DFTW/",
"accession": "IGVFDO3459DFTW",
"aliases": [
"igvf:donor_of_teloHAEC"
],
"sex": "female",
"status": "released",
"taxa": "Homo sapiens"
}
],
"file_set_type": "gRNA sequencing",
"files": [
{
"@id": "/sequence-files/IGVFFI5736WVKC/",
"accession": "IGVFFI5736WVKC",
"content_type": "reads",
"creation_timestamp": "2024-04-16T21:43:35.082147+00:00",
"file_format": "fastq",
"file_size": 10583223,
"href": "/sequence-files/IGVFFI5736WVKC/@@download/IGVFFI5736WVKC.fastq.gz",
"s3_uri": "s3://igvf-files/2024/04/16/1c8d8a7a-a073-45f2-91ab-c822407e685f/IGVFFI5736WVKC.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0004205/",
"submitted_file_name": "/Desktop/NOS3/NOS3_CRISPRi_FlowFISH/231215S023-TeloHAEC-P219-Amp_NOS3-BioRep1-FFrep2-BinD-PCRrep1_S124_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4316PRRZ/",
"accession": "IGVFFI4316PRRZ",
"content_type": "reads",
"creation_timestamp": "2024-04-16T21:43:36.809520+00:00",
"file_format": "fastq",
"file_size": 29555860,
"href": "/sequence-files/IGVFFI4316PRRZ/@@download/IGVFFI4316PRRZ.fastq.gz",
"s3_uri": "s3://igvf-files/2024/04/16/cd666d12-94f4-4da2-9c87-ca2240a4524e/IGVFFI4316PRRZ.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0004205/",
"submitted_file_name": "/Desktop/NOS3/NOS3_CRISPRi_FlowFISH/231215S023-TeloHAEC-P219-Amp_NOS3-BioRep1-FFrep2-BinD-PCRrep1_S124_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6953TDNW/",
"accession": "IGVFFI6953TDNW",
"content_type": "reads",
"creation_timestamp": "2024-04-16T21:43:33.487091+00:00",
"file_format": "fastq",
"file_size": 10472226,
"href": "/sequence-files/IGVFFI6953TDNW/@@download/IGVFFI6953TDNW.fastq.gz",
"s3_uri": "s3://igvf-files/2024/04/16/51053c5f-c2e2-40f9-8aa2-2d32cd6d68d4/IGVFFI6953TDNW.fastq.gz",
"sequencing_platform": "/platform-terms/EFO_0004205/",
"submitted_file_name": "/Desktop/NOS3/NOS3_CRISPRi_FlowFISH/231215S023-TeloHAEC-P219-Amp_NOS3-BioRep1-FFrep2-BinD-PCRrep1_S124_I1_001.fastq.gz",
"upload_status": "validated"
}
],
"input_file_set_for": [
"/analysis-sets/IGVFDS7917YHKA/"
],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"measurement_sets": [
{
"@id": "/measurement-sets/IGVFDS7519PZXN/",
"accession": "IGVFDS7519PZXN",
"aliases": [
"jesse-engreitz:measurement_NOS3_CRISPRi_FF_R1_FFrep2_binD_PCR1_S124"
],
"preferred_assay_title": "CRISPR FlowFISH screen"
}
],
"release_timestamp": "2024-06-22T00:27:13.235713+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM4227JQMA/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM4227JQMA",
"aliases": [
"jesse-engreitz:in-vitro-system_NOS3_CRISPRi_FF_R1_FFrep2_binD_PCR1_S124"
],
"classifications": [
"cell line"
],
"construct_library_sets": [
"/construct-library-sets/IGVFDS8953DFJK/"
],
"modifications": [
"/crispr-modifications/b4bc725a-8eeb-4180-9789-bece3516c0c1/"
],
"sample_terms": [
{
"@id": "/sample-terms/NTR_0000753/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:TeloHAEC"
],
"status": "released",
"summary": "TeloHAEC",
"term_name": "TeloHAEC"
}
],
"status": "released",
"summary": "TeloHAEC cell line, female, Homo sapiens (sorting details: FACS bin D for 76-100% expression of NOS3) modified with a guide library",
"taxa": "Homo sapiens"
}
],
"schema_version": "11",
"status": "released",
"submitted_by": {
"@id": "/users/3bd6f74c-8cf3-4c35-a94d-0c7c11654815/",
"title": "Chongyon Park"
},
"submitted_files_timestamp": "2024-04-16T21:43:33.487091+00:00",
"summary": "gRNA sequencing for CRISPR interference FlowFISH screen integrating a guide (sgRNA) library targeting sequence variants, transcription start sites in NOS3",
"uuid": "caae41b5-29be-4565-9e28-f5931b0dbcee"
}