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Series GSE228477 Query DataSets for GSE228477
Status Public on Apr 20, 2024
Title An exosomal circRNA signature in the diagnosis and prognostification of cholangiocarcinoma: circRNA microarray analysis for 10 human bile samples
Organism Homo sapiens
Experiment type Expression profiling by array
Non-coding RNA profiling by array
Summary We have completed the Arraystar Human circRNA Array V2 analysis of 10 bile exosome samples (5 cholangiocarcinoma-induced biliary obstruction vs. 5 benign biliary obstruction). Total RNA from each sample was quantified using the NanoDrop ND-1000. The sample preparation and microarray hybridization were performed based on the Arraystar’s standard protocols. Briefly, total RNAs were digested with Rnase R (Epicentre, Inc.) to remove linear RNAs and enrich circular RNAs. Then, the enriched circular RNAs were amplified and transcribed into fluorescent cRNA utilizing a random priming method (Arraystar Super RNA Labeling Kit; Arraystar). The labeled cRNAs were hybridized onto the Arraystar Human circRNA Array V2 (8x15K, Arraystar). After having washed the slides, the arrays were scanned by the Agilent Scanner G2505C. Agilent Feature Extraction software (version was used to analyze acquired array images. Quantile normalization and subsequent data processing were performed using the R software limma package. Differentially expressed circRNAs with statistical significance between two groups were identified through Volcano Plot filtering. Differentially expressed circRNAs between two samples were identified through Fold Change filtering. Hierarchical Clustering was performed to show the distinguishable circRNAs expression pattern among samples.
Overall design Exosomal circRNA from 10 human bile samples (5 cholangiocarcinoma vs. 5 bile duct stones) were analysed using circRNA microarry.
contributor: KangChen Services
Contributor(s) Wen N, Peng D, Lu J, Li B
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Submission date Mar 29, 2023
Last update date Apr 20, 2024
Contact name Ningyuan Wen
Organization name West China Hospital, Sichuan University
Street address No.37 GuoXueXiang, Wuhou district, Chengdu, China
City Chengdu
ZIP/Postal code 610041
Country China
Platforms (1)
GPL21825 074301 Arraystar Human CircRNA microarray V2
Samples (10)
GSM7122512 M1
GSM7122513 M2
GSM7122514 M3
BioProject PRJNA950010

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE228477_RAW.tar 7.0 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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