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Sample GSM7669456 Query DataSets for GSM7669456
Status Public on Nov 02, 2023
Title 4C
Sample type SRA
Source name HEART
Organism Mus musculus
Characteristics tissue: HEART
strain: C57BL6
gender: male
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
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
BioSample SAMN36772702
SRA SRX21200062

Supplementary file Size Download File type/resource
GSM7669456_4C_rsem.genes.results.gz 1.9 Mb (ftp)(http) RESULTS
GSM7669456_4C_rsem.isoforms.results.gz 3.1 Mb (ftp)(http) RESULTS
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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