{
"@context": "/terms/",
"@id": "/sequence-files/IGVFFI9404PGPV/",
"@type": [
"SequenceFile",
"File",
"Item"
],
"accession": "IGVFFI9404PGPV",
"aliases": [
"jesse-engreitz:auxiliary_file_CRUDO_MYC-Auxin0hrs-FF1-BinC-PCR1_Rep2_S58"
],
"assay_titles": [
"CRISPR FlowFISH screen"
],
"audit": {},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"content_md5sum": "584d7d0ad73fc63bde34e1e6ae46524f",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-06-01T01:58:27.221922+00:00",
"externally_hosted": false,
"file_format": "fastq",
"file_set": {
"@id": "/auxiliary-sets/IGVFDS4252ROMJ/",
"accession": "IGVFDS4252ROMJ",
"file_set_type": "gRNA sequencing",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM4577TQPO/",
"accession": "IGVFSM4577TQPO",
"classifications": [
"cell line"
],
"modifications": [
{
"@id": "/crispr-modifications/8543fa06-1720-4e7d-8e8f-7e24c1b1cf79/",
"modality": "interference",
"status": "released",
"summary": "CRISPRi Sp-dCas9-KOX1-KRAB"
},
{
"@id": "/degron-modifications/2e8d10cc-fc98-44d5-a7d9-e2892e16c98a/",
"modality": "degradation",
"status": "released",
"summary": "inactive AID system targeting RAD21"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0002824/",
"status": "released",
"term_name": "HCT116"
}
],
"status": "released",
"summary": "HCT116 cell line, male, Homo sapiens (sorting details: FACS bin C for 35-45% expression of MYC) modified with CRISPRi Sp-dCas9-KOX1-KRAB, inactive AID system targeting RAD21, transfected with a guide library",
"taxa": "Homo sapiens"
}
],
"status": "released",
"summary": "gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci"
},
"file_size": 9959917,
"gene_list_for": [],
"href": "/sequence-files/IGVFFI9404PGPV/@@download/IGVFFI9404PGPV.fastq.gz",
"index": "GCACATCT:TCTC",
"input_file_for": [
"/tabular-files/IGVFFI3437ZDNT/"
],
"integrated_in": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"loci_list_for": [],
"maximum_read_length": 21,
"md5sum": "a77bc1503fdbf4f116c6a7974b7c1858",
"mean_read_length": 21,
"minimum_read_length": 21,
"read_count": 504994,
"release_timestamp": "2024-07-10T20:19:30.008058+00:00",
"s3_uri": "s3://igvf-files/2024/06/01/c8af7250-ed35-494b-8dd6-c0870d2a1923/IGVFFI9404PGPV.fastq.gz",
"schema_version": "14",
"seqspecs": [
"/configuration-files/IGVFFI7410ZLTK/"
],
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008565/",
"status": "released",
"term_name": "Illumina HiSeq 2500"
},
"sequencing_run": 1,
"status": "released",
"submitted_by": {
"@id": "/users/100f06c6-83a7-4b4d-9dfd-053a1829773b/",
"title": "Benjamin Doughty"
},
"submitted_file_name": "/oak/stanford/groups/engreitz/Projects/Cohesin/220819B015_MYC/fastq_trim/MYC-Auxin0hrs-FF1-BinC-PCR1-Rep2_S58_R1_001.fastq.gz",
"summary": "reads from sequencing run 1",
"upload_status": "validated",
"uuid": "c8af7250-ed35-494b-8dd6-c0870d2a1923"
}