Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer

• Published in: Cancer medicine (Malden, MA) Vol. 12; no. 1; pp. 949 - 960
• Main Authors: Wu, Liwei, Chen, Yongfang, Wan, Laiyi, Wen, Zilu, Liu, Rong, Li, Leilei, Song, Yanzheng, Wang, Lin
• Format: Journal Article
• Language: English
• Published: United States John Wiley & Sons, Inc 01.01.2023; John Wiley and Sons Inc; Wiley
• Subjects: Acquired immune deficiency syndrome; Acquired Immunodeficiency Syndrome; AIDS; Biomarkers; Cancer therapies; Cell Cycle Proteins - genetics; differential gene analysis; Gene expression; Gene Expression Profiling; Gene Regulatory Networks; Genotype & phenotype; Highly active antiretroviral therapy; HIV; HIV infected lung cancer; hub gene; Human immunodeficiency virus; Humans; Lung cancer; Lung Neoplasms - genetics; Mitosis; Ontology; Patients; Polo-like kinase 1; PPI; Proteins; Public health; Sequence Analysis, RNA; Survival; Transcriptome; Transcriptomics; WCGNA; PPI; hub gene; HIV infected lung cancer; WCGNA; differential gene analysis
• ISSN: 2045-7634; 2045-7634
• DOI: 10.1002/cam4.4853

With the widespread use of highly active antiretroviral therapy (HARRT), the survival time of AIDS patients has been greatly extended. However, the incidence of lung cancer in HIV‐infected patients is increasing and has become a major problem threatening the survival of AIDS patients. The aim of this study is to use Weighted Gene Co‐expression Network Analysis (WGCNA) and differential gene analysis to find possible key genes involved in HIV‐infected lung cancer. In this study, using lung tissue samples from five pairs of HIV‐infected lung cancer patients, second‐generation sequencing was performed and transcriptomic data were obtained. A total of 132 HIV‐infected lung cancer‐related genes were screened out by WGCNA and differential gene expression analysis methods. Based on gene annotation analysis, these genes were mainly enriched in mitosis‐related functions and pathways. In addition, in protein–protein interaction (PPI) analysis, a total of 39 hub genes were identified. Among them, five genes (ASPM, CDCA8, CENPF, CEP55, and PLK1) were present in both three hub gene lists (intersection gene, DEGs, and WCGNA module) suggesting that these five genes may become key genes involved in HIV‐infected lung cancer. 1. This study reveals a unique transcriptomic profile of HIV‐infected lung cancer patients. 2.This study could point the way to studying the pathogenesis of lung cancer in HIV infection.