|
Status |
Public on Nov 02, 2023 |
Title |
SalineA |
Sample type |
SRA |
|
|
Source name |
HEART
|
Organism |
Mus musculus |
Characteristics |
tissue: HEART strain: C57BL6 gender: male treatment: SALINE
|
Treatment protocol |
C57BL6 male mice were administered with subcutaneous Isoproterenol for 4,8 and 11 days and saline as controls.
|
Growth protocol |
Animals were maintained in individually ventilated cages with ad libitum access to chow.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using TRIZOL. DNA was depleted using DNaseI. RNA libraries for RNA-seq were prepared using Illumina TrueSeq total RNA kit following manufacturer’s protocols.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
Sequence reads were trimmed for adaptor sequence/low-quality sequence using Cutadapt v4.1 (quality cutoff:20 and min read length cutoff:50) Trimmed sequence reads were mapped to GRCm38.p6 using HISAT2 v2.2.1 Gene and Isoform abundances were quantified using RSEM v1.3.3 Normalisation and RNA-seq differential expression was done in DESeq2 Assembly: GRCm38.p6 Supplementary files format and content: Tab-delimited text files includes gene counts, TPM and FPKM for each sample Supplementary files format and content: Tab-delimited text files includes isoform counts, TPM and FPKM for each sample
|
|
|
Submission date |
Jul 31, 2023 |
Last update date |
Nov 02, 2023 |
Contact name |
Kumarswamy Regalla |
E-mail(s) |
rk@ccmb.res.in
|
Organization name |
CCMB
|
Street address |
Centre for Cellular and Molecular Biology (CSIR-CCMB), Habsiguda
|
City |
Hyderabad |
State/province |
Telangana |
ZIP/Postal code |
500007 |
Country |
India |
|
|
Platform ID |
GPL24247 |
Series (1) |
GSE239653 |
Transcriptional changes during Isoproterenol induced cardiac fibrosis in mice |
|
Relations |
BioSample |
SAMN36772708 |
SRA |
SRX21200056 |