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Sample GSM6597354 Query DataSets for GSM6597354
Status Public on Sep 22, 2023
Title Bjab cell line, stable transfection short version of TACI, replicate 3
Sample type SRA
 
Source name Lymphocyte
Organism Homo sapiens
Characteristics tissue: Lymphocyte
cell line: cell line
cell type: lymphocyte
genotype: Burkitt lymphoma tumor
treatment: Untreated
Extracted molecule polyA RNA
Extraction protocol RNA from the sorted cells was isolated using the RNeasy Plus Micro kit (QIAGEN).
Quality control was performed by bioanalyzer (Agilent), and RNA samples with an RNA integrity number (RIN) > 8 were processed for library preparation using Nextera XT DNA (Illumina) library preparation kits
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Raw RNaseq fastq reads were trimmed with bbtools and QC assesed with FASTQC
Reads were aligned to human genome (hg38) using STAR (v. 2.4.0h)
Gene-assignment and count of RNA reads were performed with HTseq.
Assembly: hg38
Supplementary files format and content: raw counts
 
Submission date Sep 22, 2022
Last update date Sep 22, 2023
Contact name Miguel Fribourg
E-mail(s) Miguel.Fribourg@mssm.edu
Phone 212-241-4534
Organization name Icahn School of Medicine at Mount Sinai
Department Medicine
Street address 1 Gustave Levy Pl
City New York
State/province NY
ZIP/Postal code 10029
Country USA
 
Platform ID GPL24676
Series (1)
GSE213981 Endogenous B cell TACI-Short-APRIL signaling
Relations
BioSample SAMN30965197
SRA SRX17676807

Supplementary file Size Download File type/resource
GSM6597354_BJABSHORT3.counts.txt.gz 4.4 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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