An Integrated Three-Long Non-coding RNA Signature Predicts Prognosis in Colorectal Cancer Patients

Abstract

Colorectal cancer (CRC) is one of the most common cancers worldwide, whose morbidity and mortality gradually increased. Here, we aimed to identify and access prognostic long non-coding RNAs (lncRNAs) associated with overall survival (OS) in CRC. Firstly, RNA expression profiles were obtained from The Cancer Genome Atlas (TCGA) database, and 439 CRC patients were enrolled as a training set. Univariate Cox analysis and the least absolute shrinkage and selection operator analysis (LASSO) were performed to identify the prognostic lncRNAs. Multivariable Cox regression analysis was used to establish a prognostic risk formula including three lncRNAs (AP003555.2, AP006284.1, and LINC01602). The low-risk group had a better OS than the high-risk group (P < 0.0001), and the areas under the receiver operating characteristic curve (AUCs) of 3- and 5-year OS were 0.712 and 0.674, respectively. Then, we evaluated the signature in a clinical validation set which were collected from the Affiliated Hospital of Jiangnan University. Compared with the low-risk group, patients' OS were found to be significantly worse in the high-risk group (P = 0.0057). The AUCs of 3- and 5-year OS were 0.701 and 0.694, respectively. Finally, we constructed an lncRNA–microRNA (miRNA)–messenger RNA (mRNA) competing endogenous RNA (ceRNA) network to explore the potential function of three differentially expressed lncRNAs (DElncRNAs). The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis indicated that these DElncRNAs were involved with several cancer-related pathways. In summary, our data provide evidence that the three-lncRNA signature could serve as an independent biomarker to predict prognosis in CRC. This study will also suggest that these three lncRNAs potentially participate in the progression of CRC.

A Robust 6-lncRNA Prognostic Signature for Predicting the Prognosis of Patients With Colorectal Cancer Metastasis

“…High expression of BANCR could be in positive correlation with CRC metastasis and poor prognosis, which was consistent with our findings (30). Consistently, it has been reported that LINC01602 could predict poor prognosis of CRC patients (31). However, the mechanisms of GK-IT1, CECR7, and LINC02188 in CRC metastasis remain unclear.…”

Development and Validation of an Immune-Related lncRNA Signature for Predicting the Prognosis of Hepatocellular Carcinoma

“…Hence, identifying effective lncRNAs to predict the prognosis of cancer patients has gradually attracted various levels of scientific research. Moreover, researchers have explored many lncRNA predictive models to determine the prognosis of tumor patients including liver cancer, pancreatic cancer, lung cancer, esophageal cancer, colorectal cancer, breast cancer, among others ( Gu et al, 2018 , 2019 ; Zhao et al, 2018 ; Liu et al, 2019 ; Ma and Deng, 2019 ; Zhou et al, 2019 ; Shen et al, 2020 ; Zhang et al, 2020 ; Zheng et al, 2020 ). A study by Ma found that four lncRNA signature can effectively distinguish high-risk and low-risk patients in liver cirrhosis and liver cancer patients thereby accurately predict the prognosis of liver cancer patients ( Ma and Deng, 2019 ).…”

Identification of a Five-Autophagy-Related-lncRNA Signature as a Novel Prognostic Biomarker for Hepatocellular Carcinoma

“…Then, the raw count data were normalized by transcripts-per-million method and underwent a log2 transformation. LncRNAs were reannotated by gene symbol based on the gene annotation file “gencode.v35.long_noncoding_RNAs,” which was downloaded from the GENCODE website ( https://www.gencodegenes.org/human/ ) (Liu et al, 2019b ). ARGs were obtained from the HADb (Human Autophagy Database, http://www.autophagy.lu/ ).…”