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| Status |
Public on Dec 31, 2018 |
| Title |
Profiling and bioinformatics analyses reveal differential expression of circular RNA in tongue cancer revealed by high-throughput sequencing |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Circular RNAs (circRNA) are special non-coding RNAs. They are widely present, but with unknown functions. Recent studies have shown that many endogenous circRNAs have sponge function to absorb microRNAs. They can regulate target gene mRNA expression and play important roles in many biological processes. However, expression profile and function of circRNAs in human TSCC haven’t been reported. High-throughput sequencing was performed to identify and annotate from three TSCC tissues and adjacent tissues. A separate set (n=20) of human TSCCs and corresponding adjacent tissues were subjected to RT-PCR for validation of circular RNAs expression profile. GO functional analysis, KEGG pathway analysis, and circRNA–microRNA network analysis were also performed to predict the function of circRNA in TSCC.A total of 12,156 circRNAs were identified and annotated, most of the circRNAs were novel (n=6,231) and exonic (62.09%). Statistical analysis revealed 322 differentially expressed (DE) circRNAs. RT-PCR results showed that circRNA expression in TSCC was higher than that in adjacent tissues. GO functional analysis, KEGG pathway analysis, and circRNA–microRNA network analysis all showed that circRNAs correlated with tumor development and progression to a certain extent. The present study is the first to systematically characterize and annotate circRNA expression in TSCC, the majority were novel circRNAs. Some host genes of the DE circRNAs were involved in tumor signaling pathway and had complicated correlations with tumor-relevant microRNAs, indicating that circRNAs might be promoted development and progression of TSCC.
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| Overall design |
High-throughput sequencing was performed to identify and annotate from three TSCC tissues and adjacent tissues.
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| Contributor(s) |
Wu H, Chen Q, Qiu X, Xu K |
| Citation(s) |
30269358 |
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| Submission date |
Aug 19, 2018 |
| Last update date |
Apr 06, 2019 |
| Contact name |
hao wu |
| E-mail(s) |
[email protected]
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| Phone |
13706294560
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| Organization name |
Affiated hospital of nantong unversity
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| Department |
E.N.T
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| Street address |
XiSi Road,No.20
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| City |
Nantong |
| State/province |
Jiangsu |
| ZIP/Postal code |
226001 |
| Country |
China |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA486674 |
| SRA |
SRP158338 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE118750_CircRNA_Expression_Profiling.xls.gz |
1.2 Mb |
(ftp)(http) |
XLS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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