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Sample GSM6675448 Query DataSets for GSM6675448
Status Public on Jan 26, 2023
Title border zone, MI-4
Sample type SRA
 
Source name border zone
Organism Mus musculus
Characteristics tissue: border zone
genotype: WT
treatment: MI
time: D7
Extracted molecule total RNA
Extraction protocol RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA-seq libraries were constructed by a modified Smartseq2 method with UMI barcodes (Nature 533:487, 2016).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Sequenced reads were trimmed for adaptor sequence, and then mapped to mm10 mouse genome using STAR.
Aligned reads with high quality were quantified by HTSeq.
Counts per million reads (CPM) were calculated.
Unique molecular identifiers (UMIs) were extracted from Read2. Raw gene counts were calculated by UMI number to get rmdup.count file.
Assembly: mm10
Supplementary files format and content: tab-delimited text files include counts for each Sample
 
Submission date Oct 25, 2022
Last update date Jan 28, 2023
Contact name Dandan Cao
E-mail(s) 1931465@tongji.edu.cn
Phone 17853136996
Organization name Tongji University
Street address 1239 Siping Road, Yangpu District
City Shanghai
ZIP/Postal code 200092
Country China
 
Platform ID GPL24247
Series (1)
GSE184986 Inhibition of Fap Promotes Cardiac Repair by Stabilizing BNP
Relations
BioSample SAMN31438029
SRA SRX18007819

Supplementary file Size Download File type/resource
GSM6675448_MI-4.count.txt.gz 210.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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