organism: Homo sapiens
attributes.tag: library_ID
attributes.value: VS_S24_S23
attributes.tag: isolate
attributes.value: schwannoma
attributes.tag: age
attributes.value: 48.8
attributes.tag: sex
attributes.value: female
attributes.tag: biomaterial_provider
attributes.value: Raleigh Lab UCSF Helen Diller Family Comprehensive Cancer Center 1450 3rd Street, San Francisco 94170
attributes.tag: tissue
attributes.value: tumor
attributes.tag: platform
attributes.value: ILLUMINA
attributes.tag: instrument_model
attributes.value: Illumina NovaSeq 6000
attributes.tag: design_description
attributes.value: Flash frozen archived schwannoma specimens were minced with sterile Bard-Parker #10 surgical scalpels (Aspen Surgical) and mechanically dissociated with a Pestle Tissue Grinder (size A, Thomas Scientific) in ice cold lysis buffer consisting of 0.32 M sucrose, 5 mM CaCl2, 3 mM MgAc2, 0.1 mM EDTA, 10 mM Tris-HCl, 1 mM DTT and 0.1% Triton X-100 in DEPC-treated water. Sucrose solution consisting of 1.8 M sucrose, 3 mM MgAc2, 1 mM DTT and 10 mM Tris-HCl in DEPC-treated water was added to the bottom of the lysis solution in ultracentrifuge tubes (Beckman Coulter) to form a gradient, which was ultracentrifuged at 107,000g for 2.5 hours at 4°C. Nuclei pellets were resuspended in phosphate buffered saline and sequentially filtered twice in 30 μm strainers (Miltenyi Biotec). Isolated nuclei were assessed with DAPI staining and loaded onto a 10x Chromium controller using the Chromium Single Cell 3' Library & Gel Bead Kit v2 (10x Genomics).
attributes.tag: filetype
attributes.value: fastq
attributes.tag: assembly
attributes.value: GRCh38
attributes.tag: filename
attributes.value: VS_S24_S23_L004_R1_001.fastq.gz
attributes.tag: filename2
attributes.value: VS_S24_S23_L004_R2_001.fastq.gz
attributes.tag: filename3
attributes.value: VS_S24_S23_L004_I1_001.fastq.gz
attributes.tag: BioSampleModel
attributes.value: Human