|
| Status |
Public on Sep 27, 2022 |
| Title |
RNA-seq_sham |
| Sample type |
SRA |
| |
|
| Source name |
brain
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: brain
strain: Wistar
treatment: sham
time: Day 10
|
| Treatment protocol |
Briefy, after deeply anesthetized with chloral hydrate(200 mg/kg), the rats pups in Sham, HIBD, HIBD+SAL and HIBD+SB groups were perfused with physiological saline from the right auricle until the liver turns white. The brain of rats was removed on ice, put into an ice-cold PBS and rapidly separated the infarct side cerebral cortex
|
| Growth protocol |
Wistar rats, 8–10 weeks old, SPF grade, housed in a 12-h light/dark cycle, with free access to food and water.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Rat Brain tissue,10 day
|
| Data processing |
CLC Genomics Workbench v 11.0.1
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- Quality limit: 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)
Read count extraction and normalization were performed using CLC genomic benchwork
Supplementary files format and content: mm10
Supplementary files format and content: Excel file includes RPKM values for each Sample
|
| |
|
| Submission date |
May 31, 2022 |
| Last update date |
Sep 27, 2022 |
| Contact name |
shan wang |
| E-mail(s) |
wsaquarius@sina.com
|
| Organization name |
Capital Institute of Pediatrics
|
| Street address |
2yabao road
|
| City |
beijing |
| ZIP/Postal code |
100020 |
| Country |
China |
| |
|
| Platform ID |
GPL18694 |
| Series (2) |
| GSE205143 |
Sodium Butyrate mediates Histone Crotonylation and Alleviated Neonatal Rats Hypoxic -Ischemic Brain Injury Through Gut-Brain Axis [RNA-seq] |
| GSE205144 |
Sodium Butyrate(SB) mediates Histone Crotonylation and Alleviated Neonatal Rats Hypoxic -Ischemic Brain Injury Through Gut-Brain Axis |
|
| Relations |
| BioSample |
SAMN28776214 |
| SRA |
SRX15503966 |
