{
"@context": "/terms/",
"@id": "/sequence-files/IGVFFI9894AZXO/",
"@type": [
"SequenceFile",
"File",
"Item"
],
"accession": "IGVFFI9894AZXO",
"aliases": [
"jesse-engreitz:220228_8merInsertion-THP1-Amp_PPIF_promoter-BioRep4-FFrep3-BinD-PCRrep2_R2"
],
"assay_titles": [
"Variant-EFFECTS"
],
"audit": {},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"content_md5sum": "c3f92a3142deefd707658ad42f02b0a4",
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T18:53:42.875393+00:00",
"externally_hosted": false,
"file_format": "fastq",
"file_set": {
"@id": "/measurement-sets/IGVFDS4716SNKJ/",
"accession": "IGVFDS4716SNKJ",
"file_set_type": "experimental data",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM7846WBRV/",
"accession": "IGVFSM7846WBRV",
"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": "released",
"summary": "THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 55-65% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library",
"taxa": "Homo sapiens"
}
],
"status": "released",
"summary": "CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus"
},
"file_size": 17474201,
"gene_list_for": [],
"href": "/sequence-files/IGVFFI9894AZXO/@@download/IGVFFI9894AZXO.fastq.gz",
"illumina_read_type": "R2",
"index": "CAGGAGCC:TGAC",
"input_file_for": [
"/tabular-files/IGVFFI2325NRPY/"
],
"integrated_in": [],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"loci_list_for": [],
"maximum_read_length": 150,
"md5sum": "15ba97c2eaba6007a78c643eddfe0b13",
"mean_read_length": 150,
"minimum_read_length": 150,
"read_count": 382935,
"release_timestamp": "2023-12-20T23:45:29.662875+00:00",
"s3_uri": "s3://igvf-files/2023/12/05/371133ef-7aa4-4a14-935e-f6d3e84cc0dd/IGVFFI9894AZXO.fastq.gz",
"schema_version": "14",
"seqspecs": [],
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"sequencing_run": 2,
"status": "released",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_file_name": "220426pPPIF_REPEAT-THP1-Gen8b-pPPIF-Amp_pPPIF-BioRep2-FFRep3-BinD-PCRrep2_S135_R2_001.fastq.gz",
"summary": "R2 reads from sequencing run 2",
"upload_status": "validated",
"uuid": "371133ef-7aa4-4a14-935e-f6d3e84cc0dd"
}