In silico analysis of DEL-1 and inflammation-related genes in lung squamous cell carcinoma

• Published in: Immunobiology (1979) Vol. 229; no. 5; p. 152838
• Main Authors: Ilikci-Sagkan, Rahsan, Fatma Akin, Dilara, Liman, Recep, Muddassir Ali, Muhammad
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier GmbH 01-09-2024; Elsevier
• Subjects: Aged; Calcium-Binding Proteins - genetics; Carcinoma, Non-Small-Cell Lung - genetics; Carcinoma, Squamous Cell - genetics; Carcinoma, Squamous Cell - immunology; Cell Adhesion Molecules; Computer Simulation; Cytokines - genetics; Cytokines - metabolism; DEL-1; Female; Gene Expression Profiling; Gene Expression Regulation, Neoplastic; Humans; Inflammation - genetics; Inflammation-related genes; Lung Neoplasms - genetics; LUSC; Male; Middle Aged; Mutation; Inflammation-related genes; DEL-1; LUSC
• ISSN: 0171-2985; 1878-3279; 1878-3279
• DOI: 10.1016/j.imbio.2024.152838

Twenty to thirty percent of non-small cell lung cancers (NSCLC) are caused by lung squamous cell carcinoma (LUSC), especially in smokers and there has been limited study previously evaluating the situation in terms of the genome and gene expression profile, which demonstrates the relationship among DEL-1, leucocyte recruitment, and pro-inflammatory cytokines in LUSC.
In the current study, the m-RNA expression patterns and mutation profiles of our target genes, such as, pro-inflammatory cytokines, chemoattractant molecules, and DEL-1 genes, in 511 LUSC patients. To find the harmful mutations, the PolyPhen-2 and SNAP programs were employed. Not only gene expression was detected, but also survival analysis and correlation between DEL-1 and other target genes’ expression levels were explored too.
Target genes such as, DEL-1, TNF, IL-18, IL-1, CXCL8, CXCL13, and IL-6 were found to have a total genetic anomaly carrying rate of 16.4%. Seven mutations were found, and two of those mutations have a pathogenic aspect. Deep deletion and gene amplification of the genetic anomalies were also observed. According to gene expression analysis results in the LUSC patient group; DEL-1 and IL-6 levels were significantly lower than those of the control group, whereas the CXCL13 level was found to be higher.
Findings of the current study revealed that, there is a significant role of DEL-1 in LUSC pathogenesis. Since present study is an in silico-centered study, this approach can give more insight on experimental studies. These events may support that one of the cancer improvement mechanisms depending on DEL-1 gene at the molecular level.