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Updated: Sep 9, 2025

Reverse Genetic Approach to Identify Regulators of Pigmentation using Zebrafish
Published on: March 1, 2022
The ceRNA Regulatory Network in Vitiligo: Evidence from Bioinformatics Analysis
Hedan Yang1, Xiuzhen Li2, Xiaoli Zhang1
1Department of Cosmetic Laser Surgery, Hospital of Dermatology, Chinese Academy of Medical Sciences and Peking Union Medical College, Nanjing, 210042, People's Republic of China.
Background:
Vitiligo is an acquired depigmentary disorder caused by the loss of functional melanocytes. Increasing evidence suggests that competing endogenous RNA (ceRNA) interactions participate in this process, yet their global architecture in vitiligo remains unclear.
Objective:
To delineate a long non-coding RNA (lncRNA)-microRNA (miRNA)-mRNA ceRNA network associated with vitiligo and to identify blood-borne RNA markers with diagnostic potential.
Methods:
miRNA, mRNA, and lncRNA expression data from vitiligo patients and healthy controls were obtained from the GEO database (GSE141655 and GSE186928). Differentially expressed (DE) mRNAs, miRNAs and lncRNAs were screened (|log2 FC| > 0.5, adj. p< 0.05). Functional enrichment, STRING-based protein-protein interaction (PPI) mapping, and lncRNA-mRNA co-expression analysis (Pearson r > 0.9) was performed. miRNA-mRNA pairs were predicted with miRWalk 3.0, and miRNA-lncRNA pairs with miRanda v3.3a (score ≥ 140, energy ≤-20 kcal mol-¹). Triplets that shared the same miRNA, displayed positive lncRNA--mRNA correlation, and showed inverse expression relative to the miRNA were combined into a ceRNA network; hub nodes were ranked by degree centrality. Candidate lncRNAs were validated by RT-qPCR in peripheral blood from 20 vitiligo patients and 20 matched controls.
Results:
A total of 454 DE-mRNAs (341 down-, 113 up-regulated), 22 DE-miRNAs (6 down-, 16 up-regulated), and 281 DE-lncRNAs (112 down-, 169 up-regulated) were identified. Enrichment analysis highlighted pathways linked to melanogenesis, oxidative stress, PI3K-Akt, JAK-STAT and IL-17 signalling. The ceRNA network comprised 33 lncRNAs, 12 miRNAs and 58 mRNAs; SLC32A1, GRIA2, PRKACG and WNT1 were top hub proteins in the PPI sub-network. Blood validation confirmed up-regulation of CASC19, NUCB1-AS1 and LINC01485 and down-regulation of VAV3-AS1, SPATA13-AS1, ZNF350-AS1 and LINC00677 (all p< 0.05).
Conclusion:
Our findings map a vitiligo-related ceRNA landscape and pinpoints seven circulating lncRNAs with diagnostic promise. The results provide a foundation for probing non-coding RNA-mediated mechanisms and developing targeted therapies for vitiligo.
Insights
This study maps the competing endogenous RNA (ceRNA) network in vitiligo, identifying seven circulating long non-coding RNAs (lncRNAs) as potential diagnostic markers for this depigmentation disorder.
Area of Science:
- Genomics
- Molecular Biology
- Dermatology
Background:
- Vitiligo is a depigmentation disorder caused by melanocyte loss.
- The global architecture of competing endogenous RNA (ceRNA) interactions in vitiligo is not well understood.
Purpose of the Study:
- To delineate the long non-coding RNA (lncRNA)-microRNA (miRNA)-mRNA ceRNA network in vitiligo.
- To identify blood-borne RNA markers for vitiligo diagnosis.
Main Methods:
- Analysis of miRNA, mRNA, and lncRNA expression data from vitiligo patients and controls.
- Construction of a ceRNA network using bioinformatics tools and validation of candidate lncRNAs via RT-qPCR.
- Identification of differentially expressed genes and pathways related to vitiligo pathogenesis.
Main Results:
- A comprehensive ceRNA network involving 33 lncRNAs, 12 miRNAs, and 58 mRNAs was constructed.
- Key pathways including melanogenesis, oxidative stress, and immune signaling were implicated.
- Seven circulating lncRNAs (CASC19, NUCB1-AS1, LINC01485, VAV3-AS1, SPATA13-AS1, ZNF350-AS1, LINC00677) were identified as potential diagnostic markers.
Conclusions:
- The study reveals a novel ceRNA landscape associated with vitiligo.
- Identified circulating lncRNAs offer promising diagnostic potential for vitiligo.
- Findings lay the groundwork for understanding non-coding RNA roles and developing targeted vitiligo therapies.
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