|
| Status |
Public on Dec 19, 2016 |
| Title |
WT_heart_isoproterenol |
| Sample type |
SRA |
| |
|
| Source name |
heart ventricles_WT_isoproterenol
|
| Organism |
Mus musculus |
| Characteristics |
tissue: heart ventricles
developmental stage: 8-12 weeks old mice
background strain: C57Bl6/J
genotype: WT
treatment: isoproterenol
|
| Growth protocol |
WT and P2Y6 KO mice aged between 8 and 12 weeks were intraperitoneally injected with 50 mg/kg/day isoproterenol (Sigma Aldrich) or saline solution, daily during 7 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mice were sacrificed and hearts were harvested and weighed. Ventricles were then stored in Trizol® reagent (Life Technologies) for RNA extraction
Indexed cDNA libraries were obtained using the TruSeq Stranded mRNA sample preparation kit (Illumina) following manufacturer recommendation.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Approximately 25 million paired-end reads (2x100) /sample were collected on a Hiseq1500 sequencing system (Illumina)
Paired-end reads (cut at 1-85 bases) were mapped against the mouse reference genome (GRCm38.p4/mm10) using STAR2.5 software to generate read alignments for each sample. Annotations Mus_musculus.GRCm38.82.gtf were obtained from ftp.Ensembl.org.
After transcripts assembling, gene level counts were obtained using HTSeq, followed by a library size normalization
Genome_build: GRCm38.p4/mm10
Supplementary_files_format_and_content: CSV file include CPM (count per million) values for each Sample.
|
| |
|
| Submission date |
Dec 21, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Frederick Libert |
| E-mail(s) |
flibert@ulb.ac.be
|
| Organization name |
ULB
|
| Department |
IRIBHM
|
| Lab |
C2-140
|
| Street address |
808 route de Lennik
|
| City |
Brussels |
| ZIP/Postal code |
B-1070 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE76215 |
Loss of mouse P2Y6 nucleotide receptor is associated with physiological macrocardia and amplified pathological cardiac hypertrophy |
|
| Relations |
| BioSample |
SAMN04359397 |
| SRA |
SRX1494367 |
