|
| Status |
Public on Apr 28, 2023 |
| Title |
Acomys DMSO 15dpi, biological replicate 5 |
| Sample type |
SRA |
| |
|
| Source name |
punched ear pinna skin
|
| Organism |
Acomys cahirinus |
| Characteristics |
tissue: punched ear pinna skin
strain: wild-type
developmental stage: adult
time point: D15
treatment: DMSO control
|
| Treatment protocol |
The pERK inhibitor and relative DMSO control were injected from D12 to D15.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The tissue was snap frozen, total RNA was extracted in Trizol (Life Technologies) according to manufacturer’s instructions
The extracted RNA samples were processed by Lexogen Services. The library was prepared through Lexogen QuantSeq FWD -SR75- kit, Product No. LS832303, according to manufacturer's instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Data were processed according to the Lexogen Services pipeline for QuantSeq 3' mRNA Seq from Lexogen (https://www.lexogen.com/quantseq-3mrna-sequencing/), https://www.lexogen.com/wp-content/uploads/2018/09/015UG110V0111_QuantSeq-FWD-HT.pdf).
The alignment was performed with the Spliced Transcripts Alignment to a Reference (STAR) tool.
The RNA-Seq Quality Control package (RSeQC) was run to comprehensively evaluate the RNA-Seq data.
Assembly: GRCm38
Supplementary files format and content: tab-delimited text files contains gene counts
|
| |
|
| Submission date |
Feb 08, 2023 |
| Last update date |
Apr 28, 2023 |
| Contact name |
Antonio Tomasso |
| E-mail(s) |
antoniotomasso@outlook.it, a.tomasso@hubrecht.eu, antonio.tomasso3@gmail.com
|
| Organization name |
Hubrecht Institute
|
| Lab |
Bartscherer
|
| Street address |
Uppsalalaan 8
|
| City |
Utrecht |
| ZIP/Postal code |
3584CT |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL24885 |
| Series (1) |
| GSE224879 |
An ERK-dependent molecular switch antagonizes fibrosis and promotes regeneration in spiny mice (Acomys) |
|
| Relations |
| BioSample |
SAMN33214253 |
| SRA |
SRX19315510 |
