A New Strategy to Identify ceRNA-Based CCDC144NL-AS1/SERPINE1 Regulatory Axis as a Novel Prognostic Biomarker for Stomach Adenocarcinoma via High Throughput Transcriptome Data Mining and Computational Verification

Zhihong Huang; Xinkui Liu; Chao Wu; Shan Lu; Stalin Antony; Wei Zhou; Jingyuan Zhang; Zhishan Wu; Yingying Tan; Xiaotian Fan; Leiming You; Zhiwei Jing; Jiarui Wu

doi:10.3389/fonc.2021.802727

A New Strategy to Identify ceRNA-Based CCDC144NL-AS1/SERPINE1 Regulatory Axis as a Novel Prognostic Biomarker for Stomach Adenocarcinoma via High Throughput Transcriptome Data Mining and Computational Verification

Front Oncol. 2022 Jan 27:11:802727. doi: 10.3389/fonc.2021.802727. eCollection 2021.

Authors

Zhihong Huang¹, Xinkui Liu¹, Chao Wu¹, Shan Lu¹, Stalin Antony², Wei Zhou³, Jingyuan Zhang¹, Zhishan Wu¹, Yingying Tan¹, Xiaotian Fan¹, Leiming You⁴, Zhiwei Jing⁵, Jiarui Wu¹

Affiliations

¹ Department of Clinical Pharmacology of Traditional Chinese Medicine, School of Chinese Materia Medica, Beijing University of Chinese Medicine, Beijing, China.
² Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu, China.
³ Pharmacy Department, China-Japan Friendship Hospital, Beijing, China.
⁴ School of Life Science, Beijing University of Chinese Medicine, Beijing, China.
⁵ Institute of Clinical Basic Medicine of Traditional Chinese Medicine, China Academy of Chinese Medicine Science, Beijing, China.

Abstract

Stomach adenocarcinoma (STAD) is one of the most malignant cancers that endanger human health. There is growing evidence that competitive endogenous RNA (ceRNA) regulatory networks play an important role in various human tumors. However, the complexity and behavioral characteristics of the ceRNA network in STAD are still unclear. In this study, we constructed a ceRNA regulatory network to identify the potential prognostic biomarkers associated with STAD. The expression profile of lncRNA, miRNA, and mRNA was downloaded from The Cancer Genome Atlas (TCGA). After performing bioinformatics analysis, the CCDC144NL-AS1/hsa-miR-145-5p/SERPINE1 ceRNA network associated to STAD prognosis of STAD was obtained. The CCDC144NL-AS1/SERPINE1 axis in the ceRNA network was identified by correlation analysis and considered as a clinical prognosis model by Cox regression analysis. In addition, methylation analysis indicated that the abnormal upregulation of CCDC144NL-AS1/SERPINE1 axis might be related to the aberrant methylation of some sites, and immune infiltration analysis suggested that CCDC144NL-AS1/SERPINE1 axis probably influences the alteration of tumor immune microenvironment and the occurrence and development of STAD. In particular, the CCDC144NL-AS1/SERPINE1 axis based on the ceRNA network constructed in the present study might be an important novel factor correlating with the diagnosis and prognosis of STAD.

Keywords: CCDC144NL-AS1/SERPINE1 axis; competitive endogenous RNA; high throughput transcriptome data mining and computational verification; prognostic biomarker; stomach adenocarcinoma.