|
| Status |
Public on Mar 23, 2021 |
| Title |
Neo2 |
| Sample type |
SRA |
| |
|
| Source name |
Intimal injury 2
|
| Organism |
Rattus norvegicus |
| Characteristics |
Sex: male
strain: Sprague-Dawley (SD)
tissue: the carotid artery at 2 wks after intimal injury
|
| Treatment protocol |
The intimal injury arteries harvested after 2 wks, and the undamaged right carotid artery served as the self-control, then performed transcriptome sequencing.
|
| Growth protocol |
Male Sprague-Dawley (SD) rats with an average weight of 400 g were anesthetized with isoflurane inhalation (MATRX VIP 3000, USA). The left carotid arteries were exposed, and a percutaneous transluminal angioplasty balloon dilatation catheter (2 F, 0.67 mm, Edwards Lifesciences, USA) was used to establish vascular intimal injury (Raugi et al., 1990). The arteries were then harvested after 2 wks, and the undamaged right carotid artery served as the self-control.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
prefrontal cortex were rharvested , flash frozen on dry ice, and RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
N2
Gene expression data from Intimal injury.
|
| Data processing |
We applied the reads filtering towards the raw reads after sequencing to achieve the clean data following the criteria: a)10% base quality <15 b) 13% base quality <20.
Hisat2 2.0.4 mapping to reference genome
count counting
Genome_build: Rnor6
Supplementary_files_format_and_content: TXT file contains counts for each sample
|
| |
|
| Submission date |
Dec 30, 2020 |
| Last update date |
Mar 23, 2021 |
| Contact name |
Qi yingxin |
| E-mail(s) |
baohan123@sjtu.edu.cn
|
| Organization name |
shanghai jiao tong university
|
| Street address |
NO.800 Dongchuan Road, Shanghai
|
| City |
shanghai |
| ZIP/Postal code |
200240 |
| Country |
China |
| |
|
| Platform ID |
GPL24688 |
| Series (1) |
| GSE164050 |
Expression data from the carotid artery at 2 wks after Intimal injury |
|
| Relations |
| BioSample |
SAMN17186355 |
| SRA |
SRX9757873 |
