Ann Dermatol.  2020 Apr;32(2):130-140. 10.5021/ad.2020.32.2.130.

Identification of Molecular Signatures in Mild Intrinsic Atopic Dermatitis by Bioinformatics Analysis

Affiliations
  • 1Department of Dermatology, Fu Dan University, Huashan Hospital, Shanghai, China. guchaoy99@163.com

Abstract

BACKGROUND
Atopic dermatitis (AD) is recognized as a common inflammatory skin disease and frequently occurred in Asian and Black individuals.
OBJECTIVE
Since the limitation of dataset associated with human severe AD, this study aimed to screen potential novel biomarkers involved in mild AD.
METHODS
Expression profile data (GSE75890) were obtained from the database of Gene Expression Omnibus. Using limma package, the differentially expressed genes (DEGs) between samples from AD and healthy control were selected. Furthermore, function analysis was conducted. Meanwhile, the protein-protein interaction (PPI) network and transcription factor (TF)-miRNA-target regulatory network were constructed. And quantitative real-time polymerase chain reaction (qRT-PCR) was used to validate the expressions patterns of key genes.
RESULTS
In total, 285 DEGs including 214 upregulated and 71 downregulated genes were identified between samples from two groups. The upregulated DEGs were mainly involved in nine pathways, such as hematopoietic cell lineage, pertussis, p53 signaling pathway, staphylococcus aureus infection, and cell cycle, while tight junction was the only pathway enriched by the downregulated DEGs. Cyclin B (CCNB)1, CCNB2, cyclin A (CCNA)2, C-X-C motif chemokine ligand (CXCL)10, and CXCL9 were key nodes in PPI network. The TF-miRNA-target gene regulatory network focused on miRNAs such as miR-106b, miR-106a, and miR-17, TFs such as nuclear factor kappa B subunit 1, RELA proto-oncogene, Sp1 transcription factor, and genes such as matrix metallopeptidase 9, peroxisome proliferator activated receptor gamma , and serpin family E member 1. Moreover, the upregulation of these genes, including CCNB1, CCNB2, CCNA2, CXCL10, and CXCL9 were confirmed by qRT-PCR.
CONCLUSION
CCNB1, CCNB2, CCNA2, and CXCL9 might be novel markers of mild AD. miR-106b and miR-17 may involve in regulation of immune response in AD patients.

Keyword

Dermatitis; Gene; MicroRNA

MeSH Terms

Asian Continental Ancestry Group
Biomarkers
Cell Cycle
Cell Lineage
Computational Biology*
Cyclin A
Cyclin B
Dataset
Dermatitis
Dermatitis, Atopic*
Gene Expression
Gene Regulatory Networks
Humans
MicroRNAs
NF-kappa B
PPAR gamma
Proto-Oncogenes
Real-Time Polymerase Chain Reaction
Skin Diseases
Sp1 Transcription Factor
Staphylococcus aureus
Tight Junctions
Transcription Factors
Up-Regulation
Whooping Cough
Biomarkers
Cyclin A
Cyclin B
MicroRNAs
NF-kappa B
PPAR gamma
Sp1 Transcription Factor
Transcription Factors
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