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基于 RNA-Seq 的口腔扁平苔藓转录组分析。

RNA-Seq based transcriptome analysis in oral lichen planus.

机构信息

Department of Dermatology, Shanghai Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, China.

Department of Oral Mucosal Diseases, Shanghai Ninth People's Hospital, College of Stomatology, Shanghai Jiao Tong University School of Medicine, National Clinical Research Center for Oral Diseases, Shanghai Key Laboratory of Stomatology & Shanghai Research Institute of Stomatology, Shanghai, China.

出版信息

Hereditas. 2021 Oct 6;158(1):39. doi: 10.1186/s41065-021-00202-z.

DOI:10.1186/s41065-021-00202-z
PMID:34615554
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8495917/
Abstract

OBJECTIVES

Oral lichen planus (OLP) is a T cell-mediated autoimmune disease recognized as an oral potential malignant disorder (OPMD) with the precise mechanism unknown. This study focused on the transcriptional profiles of OLP to elucidate its potential pathogenesis.

METHODS

We conducted RNA sequencing on matched 6 OLP tissues and 6 normal oral mucosal tissues. Gene Ontology (GO) enrichment analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and weighted gene co-expression network analysis (WGCNA) were performed on differentially expressed genes (DEGs). We utilized qRT-PCR to validated the top dysregulated genes and hub genes in another 10 pairs of specimens.

RESULTS

A total of 153 DEGs (p-values< 0.05) were detected from RNA-Seq. According to GO and KEGG analysis, the dysregulated genes were mainly related to T cell related pathway and Wnt signaling. Based on the WGCNA analysis, 5 modules with high intramodular connectivity and hub genes in each module were gained.

CONCLUSIONS

RNA-Seq and bioinformatic methods offered a valuable understanding of the biological pathways and key genes in the regulation of OLP. The identified DEGs and hub genes categorized into 2 groups including T cell regulation and inflammation and Wnt signaling pathway may serve as potential novel molecular targets for therapy.

摘要

目的

口腔扁平苔藓（OLP）是一种 T 细胞介导的自身免疫性疾病，被认为是一种口腔潜在恶性疾病（OPMD），其确切机制尚不清楚。本研究专注于 OLP 的转录谱，以阐明其潜在的发病机制。

方法

我们对 6 例 OLP 组织和 6 例正常口腔黏膜组织进行了 RNA 测序。对差异表达基因（DEGs）进行了基因本体论（GO）富集分析、京都基因与基因组百科全书（KEGG）通路和加权基因共表达网络分析（WGCNA）。我们利用 qRT-PCR 在另外 10 对标本中验证了 top 失调基因和 hub 基因。

结果

从 RNA-Seq 中检测到了 153 个 DEGs（p 值 < 0.05）。根据 GO 和 KEGG 分析，失调基因主要与 T 细胞相关途径和 Wnt 信号通路有关。基于 WGCNA 分析，获得了 5 个具有高模块内连接性的模块和每个模块中的 hub 基因。

结论

RNA-Seq 和生物信息学方法为理解 OLP 调控的生物学途径和关键基因提供了有价值的信息。分为 2 组的鉴定出的 DEGs 和 hub 基因，包括 T 细胞调节和炎症以及 Wnt 信号通路，可能成为治疗的潜在新分子靶点。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/17d7aca22f72/41065_2021_202_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/b00fece5e09f/41065_2021_202_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/608881424634/41065_2021_202_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/58cadfd3d0b9/41065_2021_202_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/fa053b9a873a/41065_2021_202_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/b1ee91fb64ff/41065_2021_202_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/17d7aca22f72/41065_2021_202_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/b00fece5e09f/41065_2021_202_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/608881424634/41065_2021_202_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/58cadfd3d0b9/41065_2021_202_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/fa053b9a873a/41065_2021_202_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/b1ee91fb64ff/41065_2021_202_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1352/8495917/17d7aca22f72/41065_2021_202_Fig6_HTML.jpg

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