|
| Status |
Public on Jun 01, 2024 |
| Title |
RNAseq_PDAC_24033_CB6644_r3 |
| Sample type |
SRA |
| |
|
| Source name |
24033
|
| Organism |
Mus musculus |
| Characteristics |
cell line: 24033
cell type: pancreatic ductal adenocarcinoma
genotype: Pdx1-Cre +, LSL-Kras G12D mut/wt, Cdkn2a ko/ko
treatment: CB-6644 24 h
|
| Treatment protocol |
Cells were treated with 1 µM CB-6644 or DMSO for 24 h.
|
| Growth protocol |
8661, 9091, 9172, 24033 and SB1557 cells were grown in DMEM suplemented with 10 % FCS and 1% Penicillin/Streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted using miRNeasy kit (Qiagen)
NEBNext rRNA Depletion v2 followed by NEBNext Ultra II RNA Library Prep kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Description |
TOC_PDAC_24033_CB6644.tsv
DGE_PDAC_24033_CB6644.tsv
|
| Data processing |
STAR alignment to the mm39 reference sequence
gene-level reads (Ensembl version 111) were counted using GenomicAlignments R package (version 1.38.2)
Differential gene expression analysis using edgeR (version 4.0.16)
Assembly: mm39
Supplementary files format and content: .tsv file containing the results of differential gene expression analysis for each cell line upon CB-6644 treatment.
|
| |
|
| Submission date |
Apr 18, 2024 |
| Last update date |
Jun 01, 2024 |
| Contact name |
Elmar Wolf |
| E-mail(s) |
elmar.wolf@biozentrum.uni-wuerzburg.de
|
| Organization name |
Biocenter of the University of Würzburg
|
| Department |
Department of Molecular Biology and Biochemistry
|
| Lab |
Cancer Systems Biology Lab
|
| Street address |
Am Hubland
|
| City |
Würzburg |
| State/province |
Bavaria |
| ZIP/Postal code |
97074 |
| Country |
Germany |
| |
|
| Platform ID |
GPL30172 |
| Series (2) |
| GSE216095 |
Targeting MYC effector functions in pancreatic cancer by inhibiting the ATPase RUVBL1/2 |
| GSE264280 |
Targeting MYC effector functions in pancreatic cancer by inhibiting the ATPase RUVBL1/2 (RNA-seq) |
|
| Relations |
| BioSample |
SAMN41006699 |
| SRA |
SRX24299520 |
