{
"@context": "/terms/",
"@id": "/configuration-files/IGVFFI1104IEKV/",
"@type": [
"ConfigurationFile",
"File",
"Item"
],
"accession": "IGVFFI1104IEKV",
"aliases": [
"jesse-engreitz:seqspecfile_CRUDO_MYC-Auxin6hrs-FF2-BinD-PCR1_Rep1_S138"
],
"assay_titles": [
"CRISPR FlowFISH screen"
],
"audit": {},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"content_md5sum": "b26a6b3c90226b7e2a07b0ff4997200e",
"content_type": "seqspec",
"creation_timestamp": "2024-06-11T20:51:28.391387+00:00",
"file_format": "yaml",
"file_set": {
"@id": "/auxiliary-sets/IGVFDS6678UHIV/",
"accession": "IGVFDS6678UHIV",
"file_set_type": "gRNA sequencing",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM4390QYVS/",
"accession": "IGVFSM4390QYVS",
"classifications": [
"cell line"
],
"modifications": [
{
"@id": "/degron-modifications/95081d1b-08b4-49ed-b324-e53fc43d8456/",
"modality": "degradation",
"summary": "AID system targeting RAD21"
},
{
"@id": "/crispr-modifications/8543fa06-1720-4e7d-8e8f-7e24c1b1cf79/",
"modality": "interference",
"summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0002824/",
"term_name": "HCT116"
}
],
"summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin D for 55-65% expression of MYC) treated with 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours, modified with AID system targeting RAD21, CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library",
"taxa": "Homo sapiens",
"treatments": [
{
"@id": "/treatments/d35868d1-c45b-49ae-8ff3-a9c0c22551c2/",
"purpose": "activation",
"summary": "Treatment of 1 μM 5-Phenyl-1H-indole-3-acetic acid for 6 hours",
"treatment_term_name": "5-Phenyl-1H-indole-3-acetic acid"
}
]
}
],
"summary": "gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci"
},
"file_size": 913,
"gene_list_for": [],
"href": "/configuration-files/IGVFFI1104IEKV/@@download/IGVFFI1104IEKV.yaml.gz",
"input_file_for": [],
"integrated_in": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"loci_list_for": [],
"md5sum": "411a9737e316052d430c1aed6e2311d8",
"release_timestamp": "2024-07-10T20:21:56.231755+00:00",
"s3_uri": "s3://igvf-files/2024/06/11/380ecdd4-2190-4ac5-9aad-1c8a6f9e510c/IGVFFI1104IEKV.yaml.gz",
"schema_version": "7",
"seqspec_of": [
"/sequence-files/IGVFFI7000MNXU/"
],
"status": "released",
"submitted_by": {
"@id": "/users/100f06c6-83a7-4b4d-9dfd-053a1829773b/",
"title": "Benjamin Doughty"
},
"submitted_file_name": "/oak/stanford/groups/engreitz/Projects/Cohesin/240410_IGVF_upload/seqspec/guideseq.out.MYC-Auxin6hrs-FF2-BinD-PCR1_Rep1_S138.yaml",
"summary": "seqspec of IGVFFI7000MNXU",
"upload_status": "validated",
"uuid": "380ecdd4-2190-4ac5-9aad-1c8a6f9e510c"
}