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

Abstract

BackgroundColorectal 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.MethodsIn 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.ResultsTotally, 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.ConclusionsWe 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.Electronic supplementary materialThe online version of this article (doi:10.1186/s12957-017-1211-7) contains supplementary material, which is available to authorized users.

Knockdown of lncRNA MIAT inhibits proliferation and cisplatin resistance in non‑small cell lung cancer cells by increasing miR‑184 expression

“…Accumulating evidence has demonstrated that lncRNAs exert complex effects in cancer progression (27,28). Abnormally expressed lncRNAs have been recognized to exert oncogenic properties in NSCLC, for instance, upregulated lncRNA maternally expressed 3 was observed to inhibit NSCLC cell proliferation and induce apoptosis by affecting p53 expression (29).…”

<p>HNF1A-AS1 Regulates Cell Migration, Invasion and Glycolysis via Modulating miR-124/MYO6 in Colorectal Cancer Cells</p>

“…[10][11][12][13] Some lncRNAs have been reported to be differentially expressed in colorectal cancer tissues and cells, but their functions have been verified. 14 For example, lncRNA DLEU1 promoted CRC cell progression through regulating KPNA3. 15 Moreover, lncRNA CRNDE induced cell proliferation and chemoresistance in CRC.…”

PGM5-AS1 Inhibits the Malignant Phenotype of Colon Cancer Cells by Regulating PAEP and NME1

“…For example, PGM5-AS1 (NCBI, Gene, NR_015423) has been reported to regulate the miR-466/PTEN axis to exert tumor-suppressive effects in esophageal squamous cancer [22]; furthermore, abnormally low expression of PGM5-AS1 is related to the poor prognosis of renal clear cell carcinoma [23]. Zhu et al [24]downloaded the original microarray data set (GSE64857) containing analysis data of gene expression of patients suffering recurrent and non-recurrent CRC, and performed bioinformatics analysis to show that PGM5-AS1 was highly co-expressed with differentially expressed mRNAs. However, no further studies of the role and underlying molecular mechanism of PGM5-AS1 in colon cancer has been carried out.…”