System analysis based on the migration- and invasion-related gene sets identifies the infiltration-related genes of glioma

作者全名："Shi, Shuang; Zhong, Jiacheng; Peng, Wen; Yin, Haoyang; Zhong, Dong; Cui, Hongjuan; Sun, Xiaochuan"

作者地址："[Shi, Shuang; Zhong, Jiacheng; Yin, Haoyang; Zhong, Dong; Sun, Xiaochuan] Chongqing Med Univ, Affiliated Hosp 1, Dept Neurosurg, Chongqing, Peoples R China; [Peng, Wen; Cui, Hongjuan] Southwest Univ, State Key Lab Silkworm Genome Biol, Chongqing, Peoples R China; [Peng, Wen; Cui, Hongjuan] Southwest Univ, Med Res Inst, Canc Ctr, Chongqing, Peoples R China"

通信作者："Sun, XC (通讯作者)，Chongqing Med Univ, Affiliated Hosp 1, Dept Neurosurg, Chongqing, Peoples R China."

来源：FRONTIERS IN ONCOLOGY

ESI学科分类：CLINICAL MEDICINE

WOS号：WOS:000972924900001

JCR分区：Q2

影响因子：4.7

年份：2023

卷号：13

期号：　

开始页：　

结束页：　

文献类型：Article

关键词：glioma; infiltration; ssGSEA; WGCNA; LASSO

摘要："The current database has no information on the infiltration of glioma samples. Here, we assessed the glioma samples' infiltration in The Cancer Gene Atlas (TCGA) through the single-sample Gene Set Enrichment Analysis (ssGSEA) with migration and invasion gene sets. The Weighted Gene Co-expression Network Analysis (WGCNA) and the differentially expressed genes (DEGs) were used to identify the genes most associated with infiltration. Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) were used to analyze the major biological processes and pathways. Protein-protein interaction (PPI) network analysis and the least absolute shrinkage and selection operator (LASSO) were used to screen the key genes. Furthermore, the nomograms and receiver operating characteristic (ROC) curve were used to evaluate the prognostic and predictive accuracy of this clinical model in patients in TCGA and the Chinese Glioma Genome Atlas (CGGA). The results showed that turquoise was selected as the hub module, and with the intersection of DEGs, we screened 104 common genes. Through LASSO regression, TIMP1, EMP3, IGFBP2, and the other nine genes were screened mostly in correlation with infiltration and prognosis. EMP3 was selected to be verified in vitro. These findings could help researchers better understand the infiltration of gliomas and provide novel therapeutic targets for the treatment of gliomas."

基金机构：Natural Science Foundation of Chongqing [cstc2022ycjh-bgzxm0145]; Southwest University [SWU-XDZD22006]

基金资助正文：This research was supported by the Natural Science Foundation of Chongqing (cstc2022ycjh-bgzxm0145) and the pilot program of Southwest University (SWU-XDZD22006).