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Basic Study | Publishing Language: Chinese | Open Access

Ion Torrent RNA-Seq detection and analysis of the long non-coding RNA in tongue squamous cell carcinoma

Ke-xiong OUYANG1, Jun LIANG, Rui ZOU, Zhi-qiang LI, Zhi-bao BAI, Zheng-guo PIAO, Jian-Jiang ZHAO( )
Key Laboratory of Oral Medicine, School and Hospital of Stomatology, Guangzhou Medical University, Guangzhou 510140, China
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Abstract

Objective

To study the difference of LncRNA expression profiles between tongue squamous cell carcinoma (TSCC) and the corresponding adjacent normal tissue. To explore the role of long non-coding RNA in gene regulation.

Methods

One fresh sample of TSCC tissue and the adjacent normal tongue tissue were selected. After extracting the total RNA, the LncRNA from different tissues was screened and compared by Ion Torrent RNA-Seq. Pick LncRNA read sequence by the method used Bowtie2, then calculate the reads per kilo bases per million reads, RPKM of LncRNA by the method then Cufflinks. Choose the RPKM ratio of LncRNA from Cancer and adjacent tissue as a candidate target.

Results

According to RNA-Seq, 52 LncRNA whose value of RPKM with a fold ＞ 10 or ＜ 0.1 compared to the adjacent normal tongue tissue was enrolled in this study, of which 28 was up-regulated expression, 24 was down-regulated expression.

Conclusion

LncRNA expression profiles may be an important potential targets in TSCC.

Keywords

Long non-coding RNATongue squamous cell carcinomaHigh-throughput sequencing
CLC number: R739.86 Document code: A Article ID: 2096-1456(2016)01-015-05

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Journal of Prevention and Treatment for Stomatological Diseases
Volume 24 Issue 1,
January 2016
Pages 15-19
DOI: 10.12016/j.issn.2096-1456.2016.01.003

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Cite this article:
OUYANG K-x, LIANG J, ZOU R, et al. Ion Torrent RNA-Seq detection and analysis of the long non-coding RNA in tongue squamous cell carcinoma. Journal of Prevention and Treatment for Stomatological Diseases, 2016, 24(1): 15-19. https://doi.org/10.12016/j.issn.2096-1456.2016.01.003

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Received: 02 September 2015
Revised: 24 September 2015
Published: 20 January 2016
© 2016 by Editorial Department of Journal of Prevention and Treatment for Stomatological Diseases

This article is licensed under a Creative Commons Attribution 4.0 International License.