SAMN32519266
External Id
University of California, San Francisco
INSDC center name
2022-12-31T00:00:00Z
INSDC first public
2022-12-31T12:14:18.620Z
INSDC last update
SRS16328655
INSDC secondary accession
live
INSDC status
Human
NCBI submission model
Human.1.0
NCBI submission package
SRS16328655
SRA accession
47
age
GRCh38
assembly
Raleigh Lab UCSF Helen Diller Family Comprehensive Cancer Center 1450 3rd Street, San Francisco 94183
biomaterial_provider
Fresh schwannomas were minced with sterile Bard-Parker #10 surgical scalpels (Aspen Surgical) and incubated in 0.4% Collagenase Type 2 (Worthington) in pre-oxygenated Dulbecco’s Modified Eagle Medium (Thermo Fisher Scientific) for 75 minutes at 37°C while rotating at 800 rotations per minute on a thermomixer. The suspension was sequentially filtered through 70 μm and 40 μm strainers (Thermo Fisher Scientific), centrifuged at 300g for 5 minutes, and resuspended in cold phosphate buffered saline. Single cell suspensions were loaded onto a 10x Chromium controller using the Chromium Single Cell 3’ Library & Gel Bead Kit v3 (10x Genomics). Libraries were sequenced on an Illumina NovaSeq (10X specific protocol) with >50,000 reads per cell. Library demultiplexing, read alignment to human genome GRCh38 and UMI quantification was performed in Cell Ranger version 1.3.1 (10X Genomics).
design_description
VSF03_cell_ranger.bam
filename
BAM
filetype
Illumina NovaSeq 6000
instrument_model
schwannoma
isolate
VSF03
library_ID
Homo sapiens
http://purl.obolibrary.org/obo/NCBITaxon_9606
organism
ILLUMINA
platform
male
sex
tumor
tissue
scRNA_VS3
title