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Sample GSM7098849 Query DataSets for GSM7098849
Status Public on Sep 13, 2023
Title intestinal tissue exosomes,S5(sham),rep4
Sample type SRA
 
Source name small intestine
Organism Mus musculus
Characteristics tissue: small intestine
genotype: WT
treatment: Sham operation control
Extracted molecule total RNA
Extraction protocol The total RNA of exosomes was extracted using the TRIzol method, and the extracted total RNA was sampled for quality inspection. The Agilent 2100 bioanalyzer was used to analyze the concentration and integrity of RNA. After passing the RNA quality inspection, 10 ng to 20 ng of RNA was digested with RNase R to remove linear RNA and used for library preparation.
The RNA was fragmented, the 5' end conversion template was added, and the first strand of cDNA was reverse-transcribed. After the first round of PCR plus the index connector, the ligation product was purified, and the ribosomal cDNA was removed with ZapR and R-probes. The library was amplified by selecting the appropriate number of cycles according to the initial amount. After amplification, the circRNA SEQ library was purified and isolated with magnetic beads. After library quality control, different libraries were pooled according to the requirements for effective concentration and target offline data volume.
 
Library strategy ncRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina NovaSeq 6000
 
Data processing TMM (trimmed mean of M-values) was used to normalize the gene expression
Sequencedreadsweretrimmedforadaptersequence,andmaskedforlow-complexityorlow-qualitysequence,thenmappedtomm10wholegenomeusingBowtie2v2.1.0
Assembly: mm10
Supplementary files format and content: tab-delimited txt files include TMM values for each Sample ...
Supplementary files format and content: Matrix table with circRNA reads count for every circRNA and every sample
 
Submission date Mar 14, 2023
Last update date Sep 13, 2023
Contact name Wen-Juan Zhang
E-mail(s) zhangwj319@126.com
Phone 15626220261
Organization name Nanfang Hospital, Southern Medical University
Street address Guangzhou, 1838 Guangzhou Avenue North, Guangzhou 510515, China
City Guangzhou
State/province Guangdong
ZIP/Postal code 510515
Country China
 
Platform ID GPL24247
Series (1)
GSE227355 Exosomal circEZH2_005, an intestinal injury biomarker, alleviates intestinal ischemia/reperfusion injury by mediating hnRNPA1/Gprc5a signaling
Relations
BioSample SAMN33759820
SRA SRX19676170

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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