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Sample GSM7714865 Query DataSets for GSM7714865
Status Public on May 17, 2024
Title Con_IRI_2
Sample type SRA
 
Source name heart
Organism Mus musculus
Characteristics tissue: heart
genotype: WT(C57BL/6J)
treatment: AAV9-Control
Treatment protocol Pre-treatment with sh-Hmbox1 AAV9 or control AAV9 vectors via tail vein 1 week before I/R or sham surgery
Growth protocol Male C57BL/6J mice of eight-to-ten weeks old were purchased from Charles River (Beijing, China) and maintained in SPF laboratory animal facility. Mice were fed a standard diet for 1 week of adaptive feeding.
Extracted molecule total RNA
Extraction protocol Total RNAs were extracted using the TRIzol reagent (Invitrogen, CA, USA) according to the manufacturer's instructions.
The libraries were constructed using VAHTS Universal V6 RNA-seq Library Prep Kit according to the manufacturer’s instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing The transcriptome sequencing was performed on an llumina Novaseq 6000 platform and 150 bp paired-end reads were generated.
Raw reads of fastq format were firstly processed using fastp and the low quality reads were removed to obtain the clean reads.
The clean reads were mapped to the mm14 genome using HISAT2.
FPKM3 of each gene was calculated and the read counts of each gene were obtained by HTSeq-count.
DESeq2 was used for gene expression analysis.
 
Submission date Aug 17, 2023
Last update date May 17, 2024
Contact name Yujiao Zhu
E-mail(s) zhu1yu2jiao3@i.shu.edu.cn
Phone 18817602272
Organization name Shanghai University
Street address Nanchen Road 381
City shanghai
ZIP/Postal code 200044
Country China
 
Platform ID GPL24247
Series (1)
GSE241079 Role of reducing Hmbox1 in cardiac ischemia/reperfusion injury
Relations
BioSample SAMN37037111
SRA SRX21393055

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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