|
| Status |
Public on Jun 25, 2024 |
| Title |
WEHI-231 TFEB KO #B-20 0h_2 |
| Sample type |
SRA |
| |
|
| Source name |
B cell lymphoma
|
| Organism |
Mus musculus |
| Characteristics |
tissue: B cell lymphoma
cell line: WEHI-231
cell type: B lymphocyte
genotype: TFEB knockout #B-20
treatment: unstimulated control
|
| Treatment protocol |
Cells were stimulated with 10µg/ml anti-IgM F(ab')2 fragments for the indicated time periods
|
| Growth protocol |
WEHI-231 B cells were maintained in RPMI supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were pelleted by centrifugation, subsequently resuspended in TRIzol reagent (Ambion) and stored at -80°C
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Sequence images were transformed with Illumina software BaseCaller to BCL files, which was demultiplexed to fastq files with bcl2fastq v2.20.0.422
STAR version 2.5 was used to align the reads to the GRCm38 genome using 2 mismatches within 50 bases
featureCounts version 1.5.0-p1 was used to quantify reads for genes in GRCm38 version 100
Assembly: GRCm38 version 100
Supplementary files format and content: Tab-delimited gene counts
|
| |
|
| Submission date |
Aug 31, 2022 |
| Last update date |
Jun 25, 2024 |
| Contact name |
Gabriela Salinas |
| E-mail(s) |
Gabriela.Salinas-Riester@medizin.uni-goettingen.de
|
| Organization name |
Universitaetsmedizin Goettingen
|
| Department |
Department of Pathology
|
| Lab |
NGS Integrative Genomics
|
| Street address |
Kreuzbergring 57
|
| City |
Goettingen |
| State/province |
Lower-Saxony |
| ZIP/Postal code |
37075 |
| Country |
Germany |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE212457 |
The influence of the transcription factor EB for BCR-induced gene expression in murine WEHI-231 B cells |
|
| Relations |
| BioSample |
SAMN30619534 |
| SRA |
SRX17386376 |
