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. 2021 Jun 16;158(1):21.
doi: 10.1186/s41065-021-00186-w.

Network analysis of potential risk genes for psoriasis

Huilin Wang  1 , Wenjun Chen  1 , Jin He  1 , Wenjuan Xu  1 , Jiangwei Liu  2
Affiliations

Network analysis of potential risk genes for psoriasis

Huilin Wang et al. Hereditas. .

Abstract

Background: Psoriasis is a complex chronic inflammatory skin disease. The aim of this study was to analyze potential risk genes and molecular mechanisms associated with psoriasis.

Methods: GSE54456, GSE114286, and GSE121212 were collected from gene expression omnibus (GEO) database. Differentially expressed genes (DEGs) between psoriasis and controls were screened respectively in three datasets and common DEGs were obtained. The biological role of common DEGs were identified by enrichment analysis. Hub genes were identified using protein-protein interaction (PPI) networks and their risk for psoriasis was evaluated through logistic regression analysis. Moreover, differentially methylated positions (DMPs) between psoriasis and controls were obtained in the GSE115797 dataset. Methylation markers were identified after comparison with the common genes.

Results: A total of 118 common DEGs were identified, which were mainly involved in keratinocyte differentiation and IL-17 signaling pathway. Through PPI network, we identified top 10 degrees as hub genes. Among them, high expression of CXCL9 and SPRR1B may be risk factors for psoriasis. In addition, we selected 10 methylation-modified genes with the higher area under receiver operating characteristic curve (AUC) value as methylation markers. Nomogram showed that TGM6 and S100A9 may be associated with an increased risk of psoriasis.

Conclusion: This suggests that immune and inflammatory responses are active in keratinocytes of psoriatic skin. CXCL9, SPRR1B, TGM6 and S100A9 may be potential targets for the diagnosis and treatment of psoriasis.

Keywords: Differentially expressed genes; Differentially methylated positions; Pathogenesis; Psoriasis.

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Conflict of interest statement

The authors declare no competing interests.

Figures

Fig. 1
Fig. 1
The differentially expressed genes between psoriasis and control. A Volcano maps of differentially expressed genes in three datasets. B The common genes in three groups of differentially expressed genes
Fig. 2
Fig. 2
Enrichment results of common differentially expressed genes. A The major biological processes of common DEGs enriched. B The major cellular component of common DEGs enriched. C The major molecular function of common DEGs enriched. D The major KEGG signaling pathway involved by common DEGs
Fig. 3
Fig. 3
Identification of hub genes. A PPI network of common differentially expressed genes. B The top 10 10 genes with the highest degree in PPI network. C The differential expression of hub genes between psoriasis and controls in GSE114286. D ROC curve of hub genes. E A nomogram of hub genes predicting psoriasis risk
Fig. 4
Fig. 4
Identification of key methylation makers. A Heatmap of the top 5000 CpG probes with significant differences. B The distribution of CpG probes. C Hyper probe and Hypo probe of CpG in the top 70 significant differences. D Screening of methylation modified genes in common DEGs. E Nomogram of risk prediction for psoriasis through methylation markers
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