|
| Status |
Public on Apr 20, 2024 |
| Title |
m5C IP-rep1 |
| Sample type |
SRA |
| |
|
| Source name |
pancreas
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: pancreas
cell line: PANC-1
cell type: Pancreatic cancer cells
treatment: pretreated with CAFs-derived Evs
rip antibody: m5c antibody
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PANC-1 cells were pretreated with CAF-deirved Evs. The total RNA were extracted via GenSeqTM m5C RNA IP Kit (GenSeq Inc., China)
Both the input samples without immunoprecipitation and the m5C IP samples were used for RNA-seq library geneMouseion with NEBNext® Ultra II Directional RNA Library Prep Kit (New England Biolabs, Inc., USA).
MeRIP-seq
|
| |
|
| Library strategy |
RIP-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Panc-1-rpt1.mRNA.m5C.bed
|
| Data processing |
Paired-end reads were harvested from Illumina Novaseq 6000 sequencer, and were quality controlled by Q30. After 3’ adaptor-trimming and low quality reads removing by cutadapt software (v1.9.3).
Assembly: UCSC HG19
Supplementary files format and content: bed
|
| |
|
| Submission date |
Apr 15, 2024 |
| Last update date |
Apr 20, 2024 |
| Contact name |
Chonghui Hu |
| E-mail(s) |
huchonghui@gdph.org.cn
|
| Organization name |
Guangdong Provincial People’s Hospital
|
| Street address |
NA Zhongshan 2nd Road, Guangzhou
|
| City |
Guangzhou |
| ZIP/Postal code |
5100080 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE263948 |
m5C MeRIP sequencing in PANC-1 cells to map the m5C methylome of PANC-1 cells treated with CAF-derived Evs |
|
| Relations |
| BioSample |
SAMN40971153 |
| SRA |
SRX24250596 |
