organism: Homo sapiens
attributes.tag: library_ID
attributes.value: VS_perturb_RNA_2_S8
attributes.tag: isolate
attributes.value: schwannoma
attributes.tag: age
attributes.value: 56
attributes.tag: sex
attributes.value: male
attributes.tag: biomaterial_provider
attributes.value: Raleigh Lab UCSF Helen Diller Family Comprehensive Cancer Center 1450 3rd Street, San Francisco 94191
attributes.tag: tissue
attributes.value: cells
attributes.tag: platform
attributes.value: ILLUMINA
attributes.tag: instrument_model
attributes.value: Illumina NovaSeq 6000
attributes.tag: design_description
attributes.value: HEI-193 cells were transduced with the perturb-seq library at 1,000X coverage at an MOI of 0.1, corresponding to approximately 95% of cells with a single integration. 72 hours following transduction, sgRNA+ cells were FACS sorted (BFP+) and were recovered in DMEM 10% FBS. Sorted cultures were treated with either 0Gy, 1.8Gy x 5 daily fractions, or 12.5Gy x 1 fraction of radiotherapy using the X-Rad 320 irradiator (Precision X-Ray). 12 hours following the final fraction of radiotherapy, cells were trypsinized and harvested in single cell suspension on the 10x Chromium Controller (10x Genomics). Single-cell Perturb-seq libraries were processed using the Chromium Next GEM Single Cell 3' GEM, Library & Gel Bead Kit v3.1with Feature Barcoding (10x Genomics), allowing direct capture of modified sgRNAs83, and sequenced on a illumina NovaSeq-6000.
attributes.tag: filetype
attributes.value: fastq
attributes.tag: assembly
attributes.value: GRCh38
attributes.tag: filename
attributes.value: VS_perturb_RNA_2_S8_L001_R1_001.fastq.gz
attributes.tag: filename2
attributes.value: VS_perturb_RNA_2_S8_L002_R1_001.fastq.gz
attributes.tag: filename3
attributes.value: VS_perturb_RNA_2_S8_L001_R2_001.fastq.gz
attributes.tag: filename4
attributes.value: VS_perturb_RNA_2_S8_L002_R2_001.fastq.gz
attributes.tag: filename5
attributes.value: VS_perturb_RNA_2_S8_L001_I1_001.fastq.gz
attributes.tag: filename6
attributes.value: VS_perturb_RNA_2_S8_L002_I1_001.fastq.gz
attributes.tag: BioSampleModel
attributes.value: Human