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Sample GSM7457621 Query DataSets for GSM7457621
Status Public on Jun 01, 2024
Title TCL1, Tbx21-KO, replicate 1, scRNA-seq
Sample type SRA
 
Source name Spleen
Organism Mus musculus
Characteristics cell type: E{mu}-TCL1 cells
genotype: Tbx21-KO
tissue: Spleen
strain: NSG
Growth protocol Tbx21-KO (-/-) and Tbx21-WT (+/+) TCL1 cells were expanded in immunodeficient NSG animals.
Extracted molecule nuclear RNA
Extraction protocol Mice were euthanized by increasing concentrations of carbon dioxide (CO2). Single-cell suspensions from spleens were prepared using the GentleMacs system. Splenocytes were enriched in TCL1 cells using EasySep™ Mouse Pan-B Cell Isolation Kit for further analyses, resulting in a purity above 97% of CD5+ CD19+ cells.
Libraries were prepared according to the Chromium single-cell Multiome ATAC +Gene Expression protocol v1 (10x Genomics).
 
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description 10x Genomics
TCL1_Tbx21KO_49
Data processing Demultiplexing, barcode processing, genome mapping, gene counting (including introns) and aggregation were conducted using the Cell Ranger software v5.0.0 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: mm10-2020-A
Supplementary files format and content: pseudo-bulk bam, h5 single cell count matrix
 
Submission date Jun 06, 2023
Last update date Jun 01, 2024
Contact name Isabelle Seufert
Organization name DKFZ
Street address Im Neuenheimer Feld 280
City Heidelberg
ZIP/Postal code 69120
Country Germany
 
Platform ID GPL24247
Series (2)
GSE234225 NF-κB-induced expression of T-bet suppresses proliferation of malignant B cells and is associated with good prognosis in chronic lymphocytic leukemia [scRNA-seq]
GSE234226 NF-κB-induced expression of T-bet suppresses proliferation of malignant B cells and is associated with good prognosis in chronic lymphocytic leukemia
Relations
BioSample SAMN35639482
SRA SRX20599707

Supplementary file Size Download File type/resource
GSM7457621_TCL1_Tbx21KO_49_CellRanger_raw_feature_bc_matrix.h5 32.6 Mb (ftp)(http) H5
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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