<p>Combining data from TCGA and GEO databases and reverse transcription quantitative PCR validation to identify gene prognostic markers in lung cancer</p>

Abstract

BackgroundThe aim of this study was to predict and explore the possible mechanism and clinical value of genetic markers in the development of lung cancer with a combined database to screen the prognostic genes of lung cancer.Materials and methodsCommon differential genes in two gene expression chips (GSE3268 and GSE10072 datasets) were investigated by collecting and calculating from Gene Expression Omnibus and The Cancer Genome Atlas databases using R language. Five markers of gene composition (ribonucleotide reductase regulatory subunit M2 [RRM2], trophoblast glycoprotein [TPBG], transmembrane protease serine 4[TMPRFF4], chloride intracellular channel 3 [CLIC3], and WNT inhibitory factor-1 [WIF1]) were found by the stepwise Cox regression function when we further screened combinations of gene models, which were more meaningful for prognosis. By analyzing the correlation between gene markers and clinicopathological parameters of lung cancer and its effect on prognosis, the TPBG gene was selected to analyze differential expression, its possible pathways and functions were predicted using gene set enrichment analysis (GSEA), and its protein interaction network was constructed using the Search Tool for the Retrieval of Interacting Genes/Proteins (STRING) database; then, quantitative PCR and the Oncomine database were used to verify the expression differences of TPBG in lung cancer cells and tissues.ResultsThe expression levels of five genetic markers were correlated with survival prognosis, and the total survival time of the patients with high expression of the genetic markers was shorter than those with low expression (P<0.001). GSEA showed that these high-expression samples enriched the gene sets of cell adhesion, cytokine receptor interaction pathway, extracellular matrix receptor pathway, adhesion pathway, skeleton protein regulation, cancer pathway and TGF-β pathway.ConclusionThe high expression of five gene constituent markers is a poor prognostic factor in lung cancer and may serve as an effective biomarker for predicting metastasis and prognosis of patients with lung cancer.

Intracellular Chloride Channels: Novel Biomarkers in Diseases

“…It has also been demonstrated that CLIC3 is a glutathione-dependent oxidoreductase, and its function has a downstream reduction in transglutaminase-2 binding with its cofactor leading to a decrease in transglutaminase-2 activity, which is essential for physiologic function and regulation of extracellular stroma (Hernandez-Fernaud et al, 2017). Recently, CLIC3 was also proposed to be a prognostic marker for lung cancer (Liu et al, 2019).…”

Condemned or Not to Die? Gene Polymorphisms Associated With Cell Death in Pemphigus Foliaceus

“…In addition, the TRAF2 PF protective allele is associated with altered expression of at least five genes implicated in cell survival or death ( PHPT1, PTGDS, LCNL1, C8G, CLIC3 ). It is also associated with the expression of one gene related to size and inflammatory itching reaction, after mosquito bites ( AGPAT2 ) (64–70). The AGPAT2 association is particularly interesting, given the epidemiological association of endemic PF with massive and continued exposure to mosquito bites (71, 72).…”

In-Silico Evaluation of Genetic Alterations in Ovarian Carcinoma and Therapeutic Efficacy of NSC777201, as a Novel Multi-Target Agent for TTK, NEK2, and CDK1

“…The world’s largest database of oncogene chips and integrated data-mining platform for cancer gene knowledge mining is currently the Oncomine database ( (Accessed on 25 January 2021)), with 86,733 pieces of cancer tissues and normal tissues and 715 gene expression datasets having been collected [ 70 , 71 ]. The classification of differential expressions of cancer types and their respective normal tissues were analyzed on the basis of the Oncomine database.…”