|
| Status |
Public on Nov 16, 2020 |
| Title |
RNA-seq_IGF1_rep3 |
| Sample type |
SRA |
| |
|
| Source name |
Primary NRVMs, IGF1 treatment, 48 hours
|
| Organism |
Rattus norvegicus |
| Characteristics |
primary cell type: Primary cardiomyocytes
|
| Treatment protocol |
Phenylephrine (50 uM, 48 hours). IGF1 (10 nM, 48 hours).
|
| Growth protocol |
NRVMs were treated for 48 hours. Total RNA was isolated.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For RNA-seq analysis using the Illumina NovaSeq6000, 0.1-2 ug of total RNA was processed for library generation using the NuGEN Ovation RNA-seq library prep kit following the manufacturer’s protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Sequencing reads were aligned to rat genome assembly rn5 by STAR.
The number of reads aligned to RefSeq annotated genes' exons were counted using HTSeq.
Differential gene expression analyses were performed using DEseq.
Genome_build: rn5
Supplementary_files_format_and_content: text file of gene read count values
|
| |
|
| Submission date |
Jul 03, 2020 |
| Last update date |
Nov 16, 2020 |
| Contact name |
Jian Xu |
| E-mail(s) |
Jian.Xu@UTSouthwestern.edu
|
| Phone |
214-648-6125
|
| Organization name |
UT Southwestern Medical Center
|
| Department |
Children's Research Institute
|
| Street address |
6000 Harry Hines Blvd. NL12.138B
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75235 |
| Country |
USA |
| |
|
| Platform ID |
GPL25947 |
| Series (1) |
| GSE153763 |
RNA-seq transcriptonal profiling in neonatal rat ventricular myocytes under hypertrophic growth |
|
| Relations |
| BioSample |
SAMN15438737 |
| SRA |
SRX8664876 |
