Oncotarget

Research Papers:

Identification of aberrantly expressed long non-coding RNAs in stomach adenocarcinoma

Jianbin Gu, Yong Li _, Liqiao Fan, Qun Zhao, Bibo Tan, Kelei Hua and Guobin Wu

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Oncotarget. 2017; 8:49201-49216. https://doi.org/10.18632/oncotarget.17329

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Abstract

Jianbin Gu1, Yong Li1, Liqiao Fan1, Qun Zhao1, Bibo Tan1, Kelei Hua1 and Guobin Wu1

1Department of General Surgery, The Fourth Affiliated Hospital of Hebei Medical University, Hebei, China

Correspondence to:

Yong Li, email: li_yong_hbth@126.com

Keywords: stomach adenocarcinoma, expression profile, long non-coding RNA, co-expression, tumorigenesis

Received: September 08, 2016     Accepted: April 11, 2017     Published: April 21, 2017

ABSTRACT

Aim: Stomach adenocarcinoma (STAD) is a common malignancy worldwide. This study aimed to identify the aberrantly expressed long non-coding RNAs (lncRNAs) in STAD.

Results: Total of 74 DElncRNAs and 449 DEmRNAs were identified in STAD compared with paired non-tumor tissues. The DElncRNA/DEmRNA co-expression network was constructed, which covered 519 nodes and 2993 edges. The qRT-PCR validation results of DElncRNAs were consistent with our bioinformatics analysis based on RNA-sequencing. The DEmRNAs co-expressed with DElncRNAs were significantly enriched in gastric acid secretion, complement and coagulation cascades, pancreatic secretion, cytokine-cytokine receptor interaction and Jak-STAT signaling pathway. The expression levels of the nine candidate DElncRNAs in TCGA database were compatible with our RNA-sequencing. FEZF1-AS1, HOTAIR and LINC01234 had the potential diagnosis value for STAD.

Materials and Methods: The lncRNA and mRNA expression profile of 3 STAD tissues and 3 matched adjacent non-tumor tissues was obtained through high-throughput RNA-sequencing. Differentially expressed lncRNAs/mRNAs (DElncRNAs/DEmRNAs) were identified in STAD. DElncRNA/DEmRNA co-expression network construction, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were conducted to predict the biological functions of DElncRNAs. Quantitative real-time polymerase chain reaction (qRT-PCR) was subjected to validate the expression levels of DEmRNAs and DElncRNAs. Moreover, the expression of DElncRNAs was validated through The Cancer Genome Atlas (TCGA) database. The diagnosis value of candidate DElncRNAs was accessed by receiver operating characteristic (ROC) analysis.

Conclusions: Our work might provide useful information for exploring the tumorigenesis mechanism of STAD and pave the road for identification of diagnostic biomarkers in STAD.


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