|
| Status |
Public on Jun 30, 2013 |
| Title |
Control_RNAseq |
| Sample type |
SRA |
| |
|
| Source name |
vascular smooth muscle cells, untreated
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague-Dawley
cell type: cultured primary vascular smooth muscle cells (VSMCs)
treatment: none
|
| Growth protocol |
Primary VSMCs were isolated from thoracic aortas and cultured in M199 media supplemented with antibiotics and fetal bovine serum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA-seq: Ribo-minus (Invitrogen Cat. No A10837-08) and Illumina RNA-seq library preparation (Illumina Cat No. FC-122-1002).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
RNA-seq: Reads were aligned to the rn4 version of the rat genome using Tophat. Cufflinks was used to identify transcripts and Cuffdiff was used to identify differentially expressed genes.
Genome_build: rn4
Supplementary_files_format_and_content: RNA-seq: Cuffdiff output file: fpkm_tracking.
|
| |
|
| Submission date |
May 18, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Amy Leung |
| Organization name |
Beckman Research Institute, City of Hope
|
| Department |
Diabetes/Cancer
|
| Lab |
Schones
|
| Street address |
1500 E. Duarte Rd
|
| City |
Duarte |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL14844 |
| Series (1) |
| GSE38056 |
Novel long non-coding RNAs are involved in cellular response to angiotensin II signaling |
|
| Relations |
| SRA |
SRX148697 |
| BioSample |
SAMN00996638 |
