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肺腺癌中枢纽基因的加权基因共表达网络分析

Weighted gene co-expression network analysis of hub genes in lung adenocarcinoma.

作者信息

Luo Xuan, Feng Lei, Xu WenBo, Bai XueJing, Wu MengNa

机构信息

Department of Laboratory, People's Hospital of Yuxi City, Yuxi City, Yunnan Province, P.R. China.

出版信息

Evol Bioinform Online. 2021 Apr 12;17:11769343211009898. doi: 10.1177/11769343211009898. eCollection 2021.

DOI:10.1177/11769343211009898
PMID:33911849
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8047936/
Abstract

Lung adenocarcinoma (LUAD) is a tumor with high incidence. This study aimed to identify the central genes of LUAD. LUAD were analyzed by weighted gene co-expression network (WGCNA), and differentially expressed genes (DEGs) were identified. Samples were obtained from The Cancer Genome Atlas (TCGA) and Genotype Tissue Expression (GTEx) databases and included 515 LUAD samples and 347 normal samples. The WGCNA algorithm generated a total of 10 modules. The top 2 modules (MEturquoise and MEblue) with the highest correlation to LUAD were selected. Ten Hub genes (IL6, CDH1, PECAM1, SPP1, THBS1, HGF, SNCA, CDH5, CAV1, and DLC1) were screened in the intersecting genes of DEGs and WGCNA (MEturquoise and MEblue). Only SPP1 was correlated with LUAD poor survival, indicating that SPP1 may be a key Hub gene for LUAD. The competing endogenous RNA (ceRNA) network was constructed to analyze the regulatory relationship of Hub genes, and SPP1 may be directly regulated by 4 microRNAs (miRNAs) and indirectly regulated by 49 long noncoding RNAs (lncRNAs).

摘要

肺腺癌（LUAD）是一种高发性肿瘤。本研究旨在鉴定LUAD的核心基因。通过加权基因共表达网络（WGCNA）对LUAD进行分析，并鉴定差异表达基因（DEG）。样本取自癌症基因组图谱（TCGA）和基因型组织表达（GTEx）数据库，包括515个LUAD样本和347个正常样本。WGCNA算法共生成10个模块。选择与LUAD相关性最高的前2个模块（MEturquoise和MEblue）。在DEG与WGCNA（MEturquoise和MEblue）的交集基因中筛选出10个中心基因（IL6、CDH1、PECAM1、SPP1、THBS1、HGF、SNCA、CDH5、CAV1和DLC1）。只有SPP1与LUAD的不良生存相关，表明SPP1可能是LUAD的关键中心基因。构建竞争性内源性RNA（ceRNA）网络以分析中心基因的调控关系，SPP1可能受4种微小RNA（miRNA）直接调控，并受49种长链非编码RNA（lncRNA）间接调控。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/1d391d74c791/10.1177_11769343211009898-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/21bdd47e9355/10.1177_11769343211009898-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/937c21905b5e/10.1177_11769343211009898-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/1f8c72c920b6/10.1177_11769343211009898-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/58c417612e4e/10.1177_11769343211009898-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/ff117902d641/10.1177_11769343211009898-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/3f1365daa38e/10.1177_11769343211009898-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/6816e444ca8d/10.1177_11769343211009898-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/1d391d74c791/10.1177_11769343211009898-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/21bdd47e9355/10.1177_11769343211009898-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/937c21905b5e/10.1177_11769343211009898-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/1f8c72c920b6/10.1177_11769343211009898-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/58c417612e4e/10.1177_11769343211009898-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/ff117902d641/10.1177_11769343211009898-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/3f1365daa38e/10.1177_11769343211009898-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/6816e444ca8d/10.1177_11769343211009898-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/996f/8047936/1d391d74c791/10.1177_11769343211009898-fig8.jpg

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