Abstract
BackgroundColon cancer is a commonly worldwide cancer with high morbidity and mortality. Long non-coding RNAs (lncRNAs) are involved in many biological processes and are closely related to the occurrence of colon cancer. Identification of the prognostic signatures of lncRNAs in colon cancer has great significance for its treatment.MethodsWe first identified the colon cancer-related mRNAs and lncRNAs according to the differential analysis methods using the expression data in TCGA. Then, we performed correlation analysis between the identified mRNAs and lncRNAs by integrating their expression values and secondary structure information to estimate the co-regulatory relationships between the cancer-related mRNAs and lncRNAs. Besides, the competing endogenous RNA regulation network based on co-regulatory relationships was constructed to reveal cancer-related regulatory patterns. Meanwhile, we used traditional regression analysis (univariate Cox analysis, random survival forest analysis, and lasso regression analysis) to screen the cancer-related lncRNAs. Finally, by combining the identified colon cancer-related lncRNAs according to the above analyses, we constructed a risk prognosis model for colon cancer through multivariate Cox analysis and also validated the model in the colon cancer dataset in TCGA cohorts.ResultsSix lncRNAs were found highly correlated with the overall survival of colon cancer patients, and a risk prognosis model based on them was constructed to predict the overall survival of colon cancer patients. In particular, EVX1-AS, ZNF667-AS1, CTC-428G20.6, and CTC-297N7.9 were first reported to be related to colon cancer by using our model, among which EVX1-AS and ZNF667-AS1 have been predicted to be related to colon cancer in LncRNADisease database.ConclusionsThis study identified the potential regulatory relationships between lncRNAs and mRNAs by integrating their expression values and secondary structure information and presented a significant 6-lncRNA risk prognosis model to predict the overall survival of colon cancer patients.
Highlights
Colon cancer is a commonly worldwide cancer with high morbidity and mortality
It can be discovered that there is a significant dysregulation in the expression of long non-coding RNA (lncRNA) in colon cancer, and the downregulation rate is greater than the upregulation rate
DLX6AS1 has been found to act as a competing endogenous RNA (ceRNA) of miR-577 to Subsequently, through gene function analysis of the target mRNAs in the co-regulated relationship, we found that these colon cancer-related mRNAs are related to Gene Ontology (GO) terms such as signal transduction, integral component of membrane, and calcium ion binding
Summary
Long non-coding RNAs (lncRNAs) are involved in many biological processes and are closely related to the occurrence of colon cancer. Colon cancer is a common cancer with high incidence and mortality worldwide [1, 2]. Because lncRNA can bind to mRNA/miRNA and cause their abnormal expression, it can be used as a promising target for the diagnosis and treatment of colon cancer [17]. To this end, it is necessary to reveal the regulatory mechanism of lncRNAs in colon cancer and develop new therapies for human colon cancer
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