{
"@context": "/terms/",
"@id": "/sequence-files/IGVFFI5902VIRS/",
"@type": [
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],
"accession": "IGVFFI5902VIRS",
"aliases": [
"charles-gersbach:hPA-Sequence-File-perturbseq-10xlane4-CRISPR-L1-R1"
],
"assay_titles": [
"Perturb-seq"
],
"audit": {},
"award": {
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"component": "functional characterization"
},
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"content_md5sum": "b056fc3be8d4b219eb2690d90ba193b5",
"content_type": "reads",
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"creation_timestamp": "2025-04-09T21:04:31.289418+00:00",
"derived_manually": false,
"externally_hosted": false,
"file_format": "fastq",
"file_set": {
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"@type": [
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"Item"
],
"accession": "IGVFDS7160FCCA",
"data_use_limitation_summaries": [
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],
"file_set_type": "gRNA sequencing",
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{
"@id": "/primary-cells/IGVFSM2166MHKA/",
"@type": [
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],
"accession": "IGVFSM2166MHKA",
"classifications": [
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],
"modifications": [
{
"@id": "/crispr-modifications/703c3934-6c9b-41d0-8481-e73cc64075f7/",
"modality": "activation",
"status": "released",
"summary": "CRISPRa Sp-dCas9-2xVP64-2A-Puro"
}
],
"sample_terms": [
{
"@id": "/sample-terms/CL_0000127/",
"status": "released",
"term_name": "astrocyte"
}
],
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"summary": "Homo sapiens astrocyte cell treated with 10 ng/mL Neurotrophin-3, 20 ng/mL Brain-Derived Neurotrophic Factor, modified with CRISPRa Sp-dCas9-2xVP64-2A-Puro, transduced (lentivirus) with a guide library",
"taxa": "Homo sapiens",
"treatments": [
{
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"purpose": "differentiation",
"status": "in progress",
"summary": "Treatment of 20 ng/mL Brain-Derived Neurotrophic Factor",
"treatment_term_name": "Brain-Derived Neurotrophic Factor"
},
{
"@id": "/treatments/e23aab02-ae82-4935-85ad-1f238757f3ba/",
"purpose": "differentiation",
"status": "in progress",
"summary": "Treatment of 10 ng/mL Neurotrophin-3",
"treatment_term_name": "Neurotrophin-3"
}
]
}
],
"status": "released",
"summary": "gRNA sequencing for CRISPR activation Perturb-seq integrating a guide (sgRNA) library targeting transcription start sites in many genes"
},
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"gene_list_for": [],
"href": "/sequence-files/IGVFFI5902VIRS/@@download/IGVFFI5902VIRS.fastq.gz",
"illumina_read_type": "R1",
"input_file_for": [],
"integrated_in": [],
"lab": {
"@id": "/labs/charles-gersbach/",
"title": "Charles Gersbach, Duke"
},
"lane": 1,
"loci_list_for": [],
"maximum_read_length": 26,
"md5sum": "890e31d3f31f5c71a884bd494e1a3015",
"mean_read_length": 26,
"minimum_read_length": 26,
"quality_metrics": [],
"read_count": 44982649,
"read_names": [
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],
"release_timestamp": "2025-05-16T16:07:12.998251+00:00",
"s3_uri": "s3://igvf-files/2025/04/09/b857ee48-3367-4173-bf94-cb58540e0146/IGVFFI5902VIRS.fastq.gz",
"schema_version": "16",
"seqspecs": [
"/configuration-files/IGVFFI1763IVWB/"
],
"sequencing_kit": "NovaSeq 6000 S2 Reagent Kit v1.5",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008637/",
"status": "released",
"term_name": "Illumina NovaSeq 6000"
},
"sequencing_run": 4,
"status": "released",
"submitted_by": {
"@id": "/users/3782ce69-0e9f-4b46-91f9-4578139785c7/",
"title": "Ruhi Rai"
},
"submitted_file_name": "/work/rr151/SamAIM2neuro_data/CRISPR_4_S4_L001_R1_001.fastq.gz",
"summary": "R1 reads from sequencing run 4",
"upload_status": "validated",
"uuid": "b857ee48-3367-4173-bf94-cb58540e0146"
}