Cross‑disease analysis identified novel common genes for both lung adenocarcinoma and lung squamous cell carcinoma

Abstract

Lung squamous cell carcinoma (LSCC) exhibits a number of similarities with lung adenocarcinoma (LA) in terms of copy number alterations. However, compared with LA, the range of genetic alterations in LSCC is less understood. In the present study, a large-scale literature-based search of LA-associated genes and LSCC-associated genes was performed to identify the genetic basis in common with these two diseases. For each of the LA-associated genes, a mega-analysis was performed to test its expression variations in LSCC using 11 RNA expression datasets, with significant genes identified using statistical analysis. Subsequently, a functional pathway analysis was performed to identify a possible association between any of the significant genes identified from the mega-analysis and LSCC, followed by a co-expression analysis. A multiple linear regression (MLR) model was employed to investigate the possible influence of sample size, country of origin and study date on gene expression in patients with LSCC. Disease-gene association data analysis identified 1,178 genes involved in LA, 334 in LSCC, with a significant overlap of 187 genes (P<1.02× −161 ). Mega-analysis revealed that three LA-associated genes, such as solute carrier family 2 member 1 (SLC2A1), endothelial PAS domain protein 1 (EPAS1) and cyclin-dependent kinase 4 (CDK4), were significantly associated with LSCC (P<1.60×10 −8 ), with multiple potential pathways identified by functional pathway analysis, which were further validated by co-expression analysis. The present MLR analysis suggested that the country of origin was a significant factor for the levels of expression of all three genes in patients with LSCC (P<4.0×10 −3 ). Collectively, the present results suggested that genes associated with LA should be further investigated for their association with LSCC. In addition, SLC2A1, EPAS1 and CDK4 may be novel risk genes associated with LA and LSCC.

Five genes influenced by obesity may contribute to the development of thyroid cancer through the regulation of insulin levels

“…In this study, we attempted to use a system biology approach to identify the not-yet discovered connections between both diseases, including the data mining of disease-gene relation data, the analysis of molecular pathways, and a mega-analysis of existing expression datasets. The integrated analysis of multiple modalities of data has been proven to be an effective way for disease mechanism study (Liu et al, 2019;Zhang et al, 2019;Lian et al, 2019).…”

Detection and Independent Validation of Model-Based Quantitative Transcriptional Regulation Relationships Altered in Lung Cancers

“…Nucleus (6) and cytoplasm (8) are another two common sub-cellular locations for the proteins encoded by the genes with transcriptional regulations altered in lung cancers. EPAS1 is known to be a major transcriptional regulator associated with the diagnosis and prognosis of lung cancers (Wang et al, 2018;De Bastiani and Klamt, 2019;Zhang et al, 2019). This study detects that sixteen EPAS1-regulated genes demonstrated quantitatively altered transcriptional regulations in lung cancers.…”