scholarly journals RNA-Seq based transcriptome analysis in oral lichen planus

2021 ◽  
Author(s):  
Haoyu Wang ◽  
Yiwen Deng ◽  
Siqi Peng ◽  
Li Yan ◽  
Hui Xu ◽  
...  
Keyword(s):  
T Cell ◽  
Wnt Signaling ◽  
Lichen Planus ◽  
Oral Lichen Planus ◽  
Wnt Signaling Pathway ◽  
Enrichment Analysis ◽  
Rna Seq ◽  
Hub Genes ◽  
Mucosal Tissues ◽  
Oral Lichen

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 (n = 6) and 6 normal oral mucosal tissues (n = 6). 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.

scholarly journals RNA-Seq based transcriptome analysis in oral lichen planus

Hereditas ◽  
2021 ◽  
Vol 158 (1) ◽  
Author(s):  
Haoyu Wang ◽  
Yiwen Deng ◽  
Siqi Peng ◽  
Li Yan ◽  
Hui Xu ◽  
...  
Keyword(s):  
T Cell ◽  
Wnt Signaling ◽  
Lichen Planus ◽  
Oral Lichen Planus ◽  
Wnt Signaling Pathway ◽  
Enrichment Analysis ◽  
Rna Seq ◽  
Hub Genes ◽  
Mucosal Tissues ◽  
Oral Lichen

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.

scholarly journals Identification of Potential Crucial Immune-related Genes and Key Pathways in Oral Lichen Planus

2021 ◽  
Author(s):  
Lou Geng ◽  
Xingming Zhang ◽  
Yi Tang ◽  
Wenli Gu
Keyword(s):  
Lichen Planus ◽  
Focal Adhesion ◽  
Oral Lichen Planus ◽  
Life Quality ◽  
Enrichment Analysis ◽  
Hub Genes ◽  
Objective Basis ◽  
Immune Related Genes ◽  
Focal Adhesion Pathway ◽  
Oral Lichen

Abstract Oral lichen planus (OLP) is a chronic autoimmune oral mucosal disease which seriously affect the life quality of the patients. But till now, the exact etiology and pathogenesis of OLP still remains unclear. The aim of our study was to find the key molecules and pathway involved in the pathogenesis mechanisms of OLP, therefore, provide reference for identifying more effective therapeutic strategies for OLP. Data from GSE52130 were downloaded from GEO data sets for analysis, and a total of 255 differentially expressed genes were selected out. Then by means of a series of gene enrichment analysis, we illustrated that most of these important genes were enriched in the focal adhesion pathway and metabolism pathways. In addition, we also constructed a protein-protein interaction (PPI) network and identified 8 hub genes which may play the important role in the development of OLP, including THBS2, COL3A1, IGFBP3, COL1A2, COL1A1, PTGS2, IL1B, ARG1. Lastly, we also predicted transcription factors of these hub genes, then constructed the corresponding transcription regulatory network. Taken together, our data indicated that the focal adhesion pathway and metabolism pathways, as well as 8 crucial immune-related genes might be most likely involved in the development of OLP, which would provide important information and objective basis for elucidating the pathogenesis of OLP and providing more effective targeted immunotherapy strategies for OLP.

The mTOR-glycolytic pathway promotes T-cell immunobiology in oral lichen planus

Immunobiology ◽  
2020 ◽  
Vol 225 (3) ◽  
pp. 151933 ◽  
Author(s):  
Fang Wang ◽  
Jing Zhang ◽  
Gang Zhou
Keyword(s):  
T Cell ◽  
Lichen Planus ◽  
Oral Lichen Planus ◽  
Glycolytic Pathway ◽  
Oral Lichen

scholarly journals Altered Autophagy-Associated Genes Expression in T Cells of Oral Lichen Planus Correlated with Clinical Features

2016 ◽  
Vol 2016 ◽  
pp. 1-10 ◽  
Author(s):  
Ya-Qin Tan ◽  
Jing Zhang ◽  
Ge-Fei Du ◽  
Rui Lu ◽  
Guan-Ying Chen ◽  
...  
Keyword(s):  
T Cells ◽  
T Cell ◽  
Lichen Planus ◽  
Clinical Features ◽  
Peripheral Blood ◽  
Oral Lichen Planus ◽  
T Cell Response ◽  
Mrna Levels ◽  
Inflammatory Autoimmune Disease ◽  
Oral Lichen

Oral lichen planus (OLP) is a T cell-mediated inflammatory autoimmune disease. Autophagy has emerged as a fundamental trafficking event in mediating T cell response, which plays crucial roles in innate and adaptive immunity. The present study mainly investigated the mRNA expression of autophagy-associated genes in peripheral blood T cells of OLP patients and evaluated correlations between their expression and the clinical features of OLP. Five differentially expressed autophagy-associated genes were identified by autophagy array. Quantitative real-time RT-PCR results confirmed thatIGF1expression in the peripheral blood T cells of OLP patients was significantly higher than that in controls, especially in female and middle-aged (30–50 years old) OLP patients. In addition,ATG9BmRNA levels were significantly lower in nonerosive OLP patients. However, no significant differences were found in the expression ofHGS,ESR1, andSNCAbetween OLP patients and controls. Taken together, dysregulation of T cell autophagy may be involved in immune response of OLP and may be correlated with clinical patterns.

Mast cell degranulation and the role of T cell RANTES in oral lichen planus

Oral Diseases ◽  
2001 ◽  
Vol 7 (4) ◽  
pp. 246-251 ◽  
Author(s):  
ZZ Zhao ◽  
PB Sugerman ◽  
XJ Zhou ◽  
LJ Walsh ◽  
NW Savage
Keyword(s):  
Mast Cell ◽  
T Cell ◽  
Lichen Planus ◽  
Oral Lichen Planus ◽  
Mast Cell Degranulation ◽  
Oral Lichen

scholarly journals Bioinformatics analysis of differentially expressed genes and their potentially interacting miRNAs in oral lichen planus

2021 ◽  
Author(s):  
Churen Zhang ◽  
Ruoran Sun
Keyword(s):  
Lichen Planus ◽  
Differentially Expressed Genes ◽  
Oral Mucosa ◽  
Oral Lichen Planus ◽  
Kegg Pathway ◽  
Functional Enrichment ◽  
Differentially Expressed ◽  
Ppi Network ◽  
Hub Genes ◽  
Oral Lichen

Abstract Background. Among the diseases of oral mucosa, oral lichen planus (OLP) is characterized by chronic autoimmune/autoinflammation. However, the etiology and pathogenesis of OLP were still limited. The aim of this research was to identify the differentially expressed genes and their potentially interacted miRNAs in OLP to provide a possible explanation of the pathogenesis of OLP and therapeutic biomarkers.Methods. The OLP microarray dataset (GSE52130) was download from the Gene Expression Omnibus (GEO) database. R software was used to identify differentially expressed genes between the OLP samples and normal oral mucosa. Functional enrichment analysis of DEGs, including Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, were conducted. Protein–protein interaction (PPI) network analysis was performed in the STRING database. CytoHubba in the Cytoscape software was applied to determining the top 10 hub genes, whose relative miRNA was identified through RNA Interactome Database.Results. Overall, 627 DEGs was identified in OLP samples, including 351 highly expressed genes and 276 lowly expressed genes. GO analysis indicated that the epidermal differentiation was mostly enriched. For the KEGG pathway, the DEGs in OLP samples were mostly involved in Staphylococcus aureus infection, Estrogen signaling pathway, Serotonergic synapse and Histidine metabolism. Top 10 hub genes including LOR, LCE3D, LCE3E, LCE1B, LCE2B, SPRR2E, SPRR2G, LCE2A, RPTN and CDSN were identified from the PPI network. The miRNA (hsa-miR-98-5p) was regarded as the mostly possible miRNA involved in OLP.

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