|
| 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 |
