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Clinical Oral Investigations

Published in:

01-01-2018 | Original Article

Genome-wide gene expression profiling of tongue squamous cell carcinoma by RNA-seq

Authors: Hai Xia Zhang, Ou Sheng Liu, Chao Deng, Yan He, Ye Qian Feng, Jin An Ma, Chun Hong Hu, Zhan Gui Tang

Published in: Clinical Oral Investigations | Issue 1/2018

Abstract

Objective

Tongue squamous cell carcinoma (TSCC) is significantly more malignant than other type of oral squamous cell carcinoma (OSCC). In this study, we aimed to identify specific global gene expression signatures of TSCC to investigate the more invasive behavior of the deeply infiltrating cancer.

Methods

Using RNA-seq technology, we detected gene expression of 20 TSCCs, 20 matched paratumor tissues, and 10 healthy normal mucosa tissues. Enrichment analysis of gene ontology (GO) and pathway was conducted using online tools DAVID for the dysregulated genes. Additionally, we performed the quantitative real-time RT-PCR (qRT-PCR) to validate the findings of RNA-Seq in 10 samples of TSCC, matched paratumor, and normal mucosa, respectively.

Results

We detected 252 differentially expressed genes (DEGs) between TSCC and matched paratumor tissue, including 117 up-regulated and 135 down-regulated genes. For comparison between TSCC and normal mucosa, 234 DEGS were identified, consisting of 67 up-regulated and 167 down-regulated genes. For both two comparisons, GO categories of muscle contraction (GO: 0006936), epidermis development (GO: 0008544), epithelial cell differentiation (GO: 0030855), and keratinization (GO: 0031424) were commonly enriched. Altered gene expression affected some cancer-related pathways, such as tight junction. The qRT-PCR validation showed that gene expression patterns of FOLR1, NKX3-1, TFF3, PIGR, NEFL, MMP13, and HMGA2 were fully in concordance with RNA-Seq results.

Conclusion

Findings in this study demonstrated the genetic and molecular alterations associated with TSCC, providing new clues for understanding the molecular mechanisms of TSCC pathogenesis.

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Title: Genome-wide gene expression profiling of tongue squamous cell carcinoma by RNA-seq
Authors: Hai Xia Zhang
Ou Sheng Liu
Chao Deng
Yan He
Ye Qian Feng
Jin An Ma
Chun Hong Hu
Zhan Gui Tang
Publication date: 01-01-2018
Publisher: Springer Berlin Heidelberg
Published in: Clinical Oral Investigations / Issue 1/2018
Print ISSN: 1432-6981
Electronic ISSN: 1436-3771
DOI: https://doi.org/10.1007/s00784-017-2101-7

At a glance: The ONWARDS insulin icodec trials

Springer Medicine

Genome-wide gene expression profiling of tongue squamous cell carcinoma by RNA-seq

Abstract

Objective

Methods

Results

Conclusion

At a glance: The ONWARDS insulin icodec trials

Springer Medicine

Abstract

Objective

Methods

Results

Conclusion

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