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.
Highlights
Colorectal cancer (CRC) was one of the most commonly diagnosed malignancies
We identified a total of 1472 differentially expressed gene (DEG) (806 up- and 666 downregulated) and 46 differentially expressed long noncoding RNAs (lncRNAs) (24 up- and 22 downregulated) in stage III CRC compared to stage II CRC samples
Co-expression network analysis To predict the potential functions of 24 up- and 22 downregulated lncRNAs, we first calculated the Pearson correlation coefficient of DEG-lncRNA pairs according to their expression value
Summary
Colorectal cancer (CRC) was one of the most commonly diagnosed malignancies. Accumulating evidences showed that long noncoding RNAs (lncRNAs) played key roles in tumorigenesis, cancer progression, and metastasis. To develop novel treatments of CRC, a more clear understanding of molecular mechanisms underlying the development and progression of CRC is urgently needed and Endogenous cellular RNAs with lengths longer than 200 nucleotides and lack of obvious open reading frame (ORF) are the definition of long noncoding RNAs ( known as lncRNAs), which are lately discovered to be RNAs and make up 80% of noncoding RNAs [3, 4]. Accumulating evidences showed that lncRNAs have been correlated to cancer progression including CRC, the functions of most lncRNAs are still unknown [3]. LncRNA DANCR is a prognostic factor for both overall survival (OS) and disease-free survival (DFS) in CRC [6, 7]; upregulation of lncRNA FTX promoted
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