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. 2017 Aug 10;15(1):153.
doi: 10.1186/s12957-017-1211-7.

Identification of key lncRNAs in colorectal cancer progression based on associated protein-protein interaction analysis

Haishan Zhu  1 , Jiajing Yu  2 , Haifeng Zhu  1 , Yusheng Guo  2 , Shengjie Feng  3
Affiliations

Identification of key lncRNAs in colorectal cancer progression based on associated protein-protein interaction analysis

Haishan Zhu et al. World J Surg Oncol. .

Abstract

Background: Colorectal cancer (CRC) was one of the most commonly diagnosed malignancies. The molecular mechanisms involved in the progression of CRC remain unclear. Accumulating evidences showed that long noncoding RNAs (lncRNAs) played key roles in tumorigenesis, cancer progression, and metastasis. Therefore, we aimed to explore the roles of lncRNAs in the progression of CRC.

Methods: In this study, we aimed to identify differentially expressed lncRNAs and messenger RNAs (mRNAs) in CRC by analyzing a cohort of previously published datasets: GSE64857. GO and KEGG pathway analyses were applied to give us insight in the functions of those lncRNAs and mRNAs in CRC.

Results: Totally, 46 lncRNAs were identified as differentially expressed between stage II and stage III CRC for the first time screening by microarray. GO and KEGG pathway analyses showed that differentially expressed lncRNAs were involved in regulating signal transduction, cell adhesion, cell differentiation, focal adhesion, and cell adhesion molecules.

Conclusions: We found three lncRNAs (LOC100129973, PGM5-AS1, and TTTY10) widely co-expressed with differentially expressed mRNAs. We also constructed lncRNA-associated PPI in CRC and found that these lncRNAs may be associated with CRC progression. Moreover, we found that high PGM5-AS1 expression levels were associated with worse overall survival in CRC cancer. We believe that this study would provide novel potential therapeutic and prognostic targets for CRC.

Keywords: Colorectal cancer; Expression profiling; Long non-coding RNA; Protein–protein interaction analysis.

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Conflict of interest statement

Competing interest

The authors declare that they have no competing interests.

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Not applicable.

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Figures

Fig. 1
Fig. 1
Construction of co-expressed DEG-lncRNA networks in colorectal cancer between stage II and stage III. a Totally, 46 lncRNAs and 881 differentially expressed genes were clustered in the network
Fig. 2
Fig. 2
GO and KEGG analyses of differentially expressed lncRNAs in colorectal cancer between stage II and stage III. a GO pathway analysis of the dysregulated lncRNAs. b KEGG analysis of the dysregulated lncRNAs
Fig. 3
Fig. 3
Construction of PPI network of lncRNA (PGM5-AS2, TTTY10, and LOC100129973) co-expressed mRNAs in colorectal cancer between stage II and stage III. a The PGM5-AS1-related PPI network in colorectal cancer. b The TTTY10-related PPI network in colorectal cancer. c The LOC100129973-related PPI network in colorectal cancer
Fig. 4
Fig. 4
GO analysis of lncRNAs PGM5-AS1, TTTY10, and LOC100129973 in colorectal cancer between stage II and stage III. GO pathway analysis of lncRNAs PGM5-AS1 (a, d), TTTY10 (b, e) and (c, f) LOC100129973 (b, e)
Fig. 5
Fig. 5
PGM5-AS1 in TCGA database. a The expression levels of PGM5-AS1 in stage III and IV CRC samples. b The overall survival rate of high PGM5-AS1 level and low PGM5-AS1 level patients
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