|
| Status |
Public on Aug 07, 2023 |
| Title |
C76_ETO (S787Nr12) |
| Sample type |
SRA |
| |
|
| Source name |
primary pancreatic tumor line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: primary pancreatic tumor line, C76
treatment: Etomoxir
|
| Treatment protocol |
For experiments, cells were seeded in DMEM/F12 supplemented with 0.2% B27 anf FGFb in the presence or absence of macrophage-conditioned medium or 20 uM etomoxir
|
| Growth protocol |
Cells were maintained in RPMI with 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction following manufacturer´s protocol
RNA libraries were prepared for sequencing using standard Illumina protocols (TruSeq Stranded mRNA)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
S787Nr12
|
| Data processing |
Demultiplexing of the sequencing reads was performed with Illumina bcl2fastq
Adapters were trimmed with Skewer (version 0.2.2, Jiang et al. 2014).
The quality of FASTQ files was analyzed with FastQC (version 0.11.5, Andrews 2010).
Reads were aligned using STAR (version 2.5.3a)
Reads count were performed by HT-seq using annotation from gencode.genome.v27
Genome_build: human genome build 38
Supplementary_files_format_and_content: tab-delimited text file for raw read counts for each Sample
|
| |
|
| Submission date |
Aug 10, 2019 |
| Last update date |
Aug 07, 2023 |
| Contact name |
Patricia Sancho |
| E-mail(s) |
psancho@iisaragon.es
|
| Organization name |
Hospital Miguel Servet IIS Aragón
|
| Department |
Traslational Research Unit
|
| Lab |
Metabolism & Cancer Stem Cells
|
| Street address |
P. Isabel la Católica 1-3
|
| City |
Zaragoza |
| State/province |
Aragón |
| ZIP/Postal code |
50009 |
| Country |
Spain |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE135686 |
Gene-expression profiling in pancreatic cancer cells treated with macrophage conditioned media and etomoxir |
|
| Relations |
| BioSample |
SAMN12549537 |
| SRA |
SRX6693468 |
