|
| Status |
Public on Aug 20, 2016 |
| Title |
LVP0_rep1 (lncRNA) |
| Sample type |
SRA |
| |
|
| Source name |
LVP0
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6
gender: male
ventricle: LV
age: P0
developmental stage: prior to the ductal closure
|
| Treatment protocol |
N/A
|
| Growth protocol |
Deep RNA-seq was performed using total RNA isolated from male C57B/6 mouse left ventricle (LV) and right ventricle (RV) at postnatal day 0 (P0, prior to the ductal closure), day 3 (P3, transition), and day 7 (P7, terminal differentiation of the vast majority of cardiomyocytes). Strand specific cDNA libraries were constructed from three LV and RV total RNAs samples (biological replicate) at each time point with the exception of only two RV samples for day 7.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from LV and RV of male newborn mouse using the RNeasy Mini kit (Qiagen) following the manufacturer’s protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
Strand specific libraries. Paired-end RNAseq
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
left ventricle, postnatal day 0
|
| Data processing |
RNAseq reads were aligned to the mm10 genome assembly using STAR_2.4.0j with default parameters.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Aug 18, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Marlin Touma |
| Organization name |
UCLA
|
| Department |
UCLA-Cardiovascular Research Laboratory
|
| Lab |
Neonatal Congenital Heart Laboratory
|
| Street address |
650 Charles E Young drive- MRL 3760
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE85726 |
Decoding the Long Noncoding RNA during Cardiac Maturation: a Roadmap for Functional Discovery [lncRNA] |
| GSE85728 |
Neonatal Heart Maturation (NHM) SuperSeries GSE85728 |
|
| Relations |
| BioSample |
SAMN05591843 |
| SRA |
SRX2034949 |
