{
"@context": "/terms/",
"@id": "/sequence-files/IGVFFI4417EXSV/",
"@type": [
"SequenceFile",
"File",
"Item"
],
"accession": "IGVFFI4417EXSV",
"aliases": [
"jesse-engreitz:240908-S029-PPIF_5SpliceSite-IndividualVariantExp-AGGT_TCCA-THP1-BioRep1-FFrep2-BinD-PCRrep4_R1"
],
"assay_titles": [
"Variant-EFFECTS"
],
"audit": {},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"content_md5sum": "55446615a8ac2fd29bebf90b7ce49a82",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2024-12-11T00:07:31.742499+00:00",
"externally_hosted": false,
"file_format": "fastq",
"file_set": {
"@id": "/measurement-sets/IGVFDS5840GDYQ/",
"accession": "IGVFDS5840GDYQ",
"file_set_type": "experimental data",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM9921ZLNA/",
"accession": "IGVFSM9921ZLNA",
"classifications": [
"cell line"
],
"modifications": [
{
"@id": "/crispr-modifications/fc6bc0b3-a064-47d0-b95d-a9af14bb1624/",
"modality": "prime editing",
"status": "released",
"summary": "CRISPR prime editing Sp-nCas9-M-MLV RT (PE2)"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001253/",
"status": "released",
"term_name": "THP-1"
}
],
"status": "preview",
"summary": "THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 76-100% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library",
"taxa": "Homo sapiens"
}
],
"status": "preview",
"summary": "CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus"
},
"file_size": 5253275,
"gene_list_for": [],
"href": "/sequence-files/IGVFFI4417EXSV/@@download/IGVFFI4417EXSV.fastq.gz",
"illumina_read_type": "R1",
"index": "TATCTGCC:CGCAGACG",
"input_file_for": [
"/tabular-files/IGVFFI2879FWTA/"
],
"integrated_in": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"loci_list_for": [],
"maximum_read_length": 151,
"md5sum": "3110bc4b2b30a9434da924c2f54ce8b9",
"mean_read_length": 151,
"minimum_read_length": 151,
"read_count": 201724,
"s3_uri": "s3://igvf-files/2024/12/11/04418c03-cf59-4e12-8534-3a695fed7d35/IGVFFI4417EXSV.fastq.gz",
"schema_version": "14",
"seqspecs": [],
"sequencing_platform": {
"@id": "/platform-terms/EFO_0022840/",
"status": "released",
"term_name": "Illumina NovaSeq X"
},
"sequencing_run": 1,
"status": "preview",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_file_name": "240908-S029-5splice-THP1-5splicesite_C10-Amp_PPIF_5splicesite-BioRep1-FFrep2-BinD-PCRrep4_S814_R1_001.fastq.gz",
"summary": "R1 reads from sequencing run 1",
"upload_status": "validated",
"uuid": "04418c03-cf59-4e12-8534-3a695fed7d35"
}