|
| Status |
Public on May 08, 2022 |
| Title |
IGF106045 |
| Sample type |
SRA |
| |
|
| Source name |
VPA.Exposed.NEC
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: Brain
strain: NEC
treatment: VPA Exposed
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The mRNA Isolation Kit was used to extract total RNA from brain tissue samples following the manufacturer’s instructions.
Total RNA was examined for quantity and quality using the TruSeq Stranded Total RNA Library Prep Gold.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Quality control (QC) of RNA-seq reads was conducted using FastQC. Low quality reads and ribosome RNA reads were removed. Trimmed reads were then mapped to the Rattus norvegicus reference genome (rno6) using STAR (version 2.5).
Assembly: Rattus norvegicus genome assembly Rnor_6.0 (rn6) (Ensembl release 104)
Supplementary files format and content: Raw count matrix
|
| |
|
| Submission date |
Mar 16, 2022 |
| Last update date |
Dec 06, 2022 |
| Contact name |
Rahel Feleke |
| E-mail(s) |
[email protected]
|
| Organization name |
Imperial College
|
| Street address |
Ducane Road
|
| City |
London |
| ZIP/Postal code |
W12 0NN |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL18694 |
| Series (1) |
| GSE198756 |
Integrative genomics reveals pathogenic mediator of valproate-induced neurodevelopmental outcomes. |
|
| Relations |
| BioSample |
SAMN26722855 |
| SRA |
SRX14487398 |
