{
"@context": "/terms/",
"@id": "/sequence-files/IGVFFI1431VMMF/",
"@type": [
"SequenceFile",
"File",
"Item"
],
"accession": "IGVFFI1431VMMF",
"aliases": [
"jesse-engreitz:230423pPPIFEnformer-Jurkat-Amp_PPIF_promoter-BioRep2-FFrep4-BinA-PCRrep1_R2"
],
"assay_titles": [
"Variant FlowFISH"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released sequence file [IGVFFI1431VMMF](/sequence-files/IGVFFI1431VMMF/) has in progress subobject auxiliary set [IGVFDS0557FRZM](/auxiliary-sets/IGVFDS0557FRZM/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/sequence-files/IGVFFI1431VMMF/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"content_md5sum": "3da6fafd57e7db393eece11ad446da43",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T11:30:10.719579+00:00",
"file_format": "fastq",
"file_set": {
"@id": "/auxiliary-sets/IGVFDS0557FRZM/",
"accession": "IGVFDS0557FRZM",
"file_set_type": "variant sequencing",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM7887QAEK/",
"accession": "IGVFSM7887QAEK",
"classifications": [
"cell line"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0002796/",
"term_name": "Jurkat"
}
],
"summary": "Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 0-25% expression of PPIF) modified with a guide library",
"taxa": "Homo sapiens"
}
],
"summary": "variant sequencing for prime editing Variant FlowFISH integrating a guide (sgRNA) library targeting sequence variants in a genomic locus"
},
"file_size": 8826222,
"gene_list_for": [],
"href": "/sequence-files/IGVFFI1431VMMF/@@download/IGVFFI1431VMMF.fastq.gz",
"illumina_read_type": "R2",
"index": "AGCAATTC:TGAC",
"input_file_for": [],
"integrated_in": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"loci_list_for": [],
"maximum_read_length": 150,
"md5sum": "cfa94da9fa0af66375c43218cb9576d1",
"mean_read_length": 150,
"minimum_read_length": 150,
"read_count": 215276,
"release_timestamp": "2023-12-21T01:00:37.056113+00:00",
"s3_uri": "s3://igvf-files/2023/12/13/92807e0f-fde3-484b-8363-b992e3a4944b/IGVFFI1431VMMF.fastq.gz",
"schema_version": "14",
"seqspecs": [],
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"term_name": "Illumina NextSeq 550"
},
"sequencing_run": 1,
"status": "released",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_file_name": "230423pPPIFEnformerJurkat-Jurkat-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep4_BinA-PCRrep1_S337_R2_001.fastq.gz",
"summary": "R2 reads from sequencing run 1",
"upload_status": "validated",
"uuid": "92807e0f-fde3-484b-8363-b992e3a4944b"
}