TBC1D4激活蛋白分子的表达特征及预防甲状腺癌进展的关键模块基因的识别
Expression characteristics of TBC1D4 activating protein molecule and identification of key module genes for preventing thyroid cancer progression
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影响因子:8.5
分区:生物学2区 Top / 生化与分子生物学2区 应用化学2区 高分子科学2区
发表日期:2024 Oct
作者:
Na Wu, Zuoqian Jing, Huina Lv, Qun Liu, Ming Gu, Yifan Zhong, Peng Xing, Ruiyang Ma, Yuchen Jing
DOI:
10.1016/j.ijbiomac.2024.134986
摘要
像甲状腺癌这样的内分泌肿瘤逐渐增多，但尚未发现具有临床指导意义的预测指标。因此，研究有效的基因网络和代表性生物标志物有助于揭示甲状腺癌预防的分子机制。TBC1D4是一个激活蛋白分子，在调控细胞代谢和信号转导中起重要作用。本研究旨在分析TBC1D4激活蛋白的表达特征，并鉴定能预防甲状腺癌进展的关键模块基因。下载GSE65144数据集，利用R中的limma包筛选假发现率（FDR）<0.05且log2折叠变化（FC）<1的差异表达基因（DEGs）。使用WGCNA构建基因共表达网络，筛选关键模块并识别枢纽基因，重叠基因成为枢纽基因。对枢纽基因进行GO和KEGG通路富集分析，并用Lasso方法提取具有代表性的特征基因。利用GEPIA数据库分析其表达水平及对预后的影响。共筛选出3220个DEGs，发现甲状腺癌主要与darkred、darkturquoise和green模块相关。通过Venn分析筛选出639个枢纽基因，主要富集于细胞因子-受体相互作用的KEGG通路中。最终确定14个枢纽基因，重要的包括ARHGAP6、TBC1D4和TC2N。通过基因筛选和功能富集分析，构建了与TBC1D4激活蛋白相关的蛋白质相互作用网络，为甲状腺癌的预防和治疗提供了潜在的分子靶点。
Abstract
Endocrine tumors like thyroid carcinoma are becoming more frequent. No clinically informative predictors were found. Thus, effective gene networks and representative biomarkers can illuminate thyroid cancer prevention molecular mechanisms. TBC1D4 is an activating protein molecule that plays an important role in regulating cell metabolism and signal transduction. The aim of this study was to investigate the expression characteristics of TBC1D4 activating protein molecules and identify key module genes that prevent thyroid cancer progression. GSE65144 data were downloaded from GEO. "limma" in R found DEGs with a false discovery rate < 0.05 and a log2 fold change <1. WGCNA builds gene co-expression networks, screens key modules, and filters hub genes. Overlapping genes become hub genes. Hub genes underwent GO and KEGG pathway enrichment analysis. We used Lasso to extract hub gene expression results' distinctive genes. Key genes. GEPIA database determined expression and survival impact. A total of 3220 DEGs. Thyroid cancer was mostly associated with darkred, darkturquoise, and green modules. Venn screened 639 hub genes. Cytokine-cytokine receptor interaction was the primary KEGG enrichment. Hub genes were 14. Finally, ARHGAP6, TBC1D4, and TC2N were important genes. Through gene screening and functional enrichment analysis, we identified a group of genes related to TBC1D4 activating protein and constructed the corresponding protein interaction network.