|
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 TrizolĀ® 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.
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|
|
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 |