|
| Status |
Public on Apr 22, 2024 |
| Title |
shZDHHC20_3 |
| Sample type |
SRA |
| |
|
| Source name |
pancreas
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: pancreas
cell line: PANC-1 cells
cell type: pancreatic cancer cells
genotype: the treat group of knockdown of ZDHHC20 by shRNA
treatment: transfection infection
|
| Growth protocol |
PANC-1 cells were cultured in RPMI-1640 medium supplemented with 10% fetal bovine serum (FBS) and incubated at 37 °C in 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent (#15596026, Invitrogen, USA). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using NEBNext® Ultra™ Directional RNA Library Prep Kit for Illumina® following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Total RNA qualification
mRNA enrichment
Double-strand cDNA synthesis
End repair, ploy-A & adaptor addition
Fragment selection and PCR
Library qualty assessement
illumina sequencing
Assembly: hg19
Supplementary files format and content: tab-delimited text files include read count values for each Sample
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Jun 21, 2023 |
| Last update date |
Apr 22, 2024 |
| Contact name |
Huaiyuan Liang |
| E-mail(s) |
228211116@csu.edu.cn
|
| Organization name |
Institute of Urological Cancer, Central South University
|
| Street address |
183 Renmin Middle Road
|
| City |
Changsha |
| ZIP/Postal code |
410000 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE235516 |
ZDHHC20-Mediated S-Palmitoylation of YTHDF3 Stabilizes MYC mRNA to Promote Pancreatic Cancer Progression |
|
| Relations |
| BioSample |
SAMN35821918 |
| SRA |
SRX20741572 |
