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Bioinformatics profiling utilized a nine immune‐related long noncoding RNA signature as a prognostic target for pancreatic cancer
Author(s) -
Wei Chunmi,
Liang Qingyu,
Li Xue,
Li Hongyu,
Liu Yi,
Huang Xiangming,
Chen Xiujie,
Guo Yongxin,
Li Jianjun
Publication year - 2019
Publication title -
journal of cellular biochemistry
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.028
H-Index - 165
eISSN - 1097-4644
pISSN - 0730-2312
DOI - 10.1002/jcb.28754
Subject(s) - immune system , pancreatic cancer , long non coding rna , oncology , biology , medicine , cancer , gene , bioinformatics , computational biology , immunology , rna , genetics
Abstract Purpose To identify an immune‐related long noncoding RNA (lncRNA) signature with potential prognostic value for patients with pancreatic cancer. Methods Pancreatic cancer samples with available clinical information and whole genomic mRNA expression data obtained from The Cancer Genome Atlas (TCGA) were enrolled in our research. The immune score of each sample was calculated according to the expression level of immune‐related genes and used to identify the most promising immune‐related lncRNAs. According to the risk score developed from screened immune‐related lncRNAs, the high‐ and low‐risk groups were separated on the basis of the median risk score. The prediction reliability was further evaluated in the validation set and combination set. Both gene set enrichment analysis (GSEA) and principal component analysis (PCA) were performed for functional annotation, and the microenvironment cell population record was applied to evaluate the immune composition and purity of the tumor. Results A cohort of 176 samples was included in this study. A total of 163 immune‐related lncRNAs were collected according to Pearson correlation analyses between immune score and lncRNA expression |R| > 0.5, P < 0.01). Nine immune‐related lncRNAs (AL138966.2, AL133520.1, AC142472.1, AC127024.5, AC116913.1, AC083880.1, AC124016.1, AC008443.5, and AC092171.5) with the most significant prognostic values ( P < 0.01) were identified. In the training set, it was observed that patients in the low‐risk group showed longer overall survival (OS) than those in the high‐risk group ( P < 0.001); meanwhile, similar results were found in the validation set, combination set and various stratified sets ( P < 0.05, P < 0.001, P < 0.05, respectively). Moreover, the signature was identified as an independent prognostic factor and significantly associated with the OS of pancreatic cancer. The area under curve (AUC) of the receiver operating characteristic curve (ROC curve) for the nine lncRNA signature in predicting the 2‐year survival rate was 0.703. In addition, the low‐risk and high‐risk groups displayed different distributed patterns in PCA and different immune statuses in the GSEA. The signature indicated decreased purity of the tumor by implying a lower proportion of cancer cells along with an increasing enrichment of fibroblasts, myeloid dendritic cells, and monocytic lineage cells. Conclusions Our research suggests that the immune‐related lncRNA signature possesses latent prognostic value for patients with pancreatic cancer and may provide new information for immunological research and treatment in pancreatic cancer.