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Screening of candidate genes in fibroblasts derived from patients with Dupuytren’s contracture using bioinformatics analysis

  • Original Article - Genes and Disease
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Abstract

Our study aimed to identify candidate genes associated with Dupuytren’s contracture (DC) and elucidate their roles in DC development. The microarray data of GSE21221 were downloaded from Gene Expression Omnibus database, including six samples from carpal tunnel-derived fibroblasts and six samples from DC-derived fibroblasts. The differentially expressed genes (DEGs) in DC samples were screened using limma package. GO annotation and KEGG pathway analyses were performed by DAVID online tool. Protein–protein interaction network and expression correlation network were constructed to identify crucial relationships between DEGs. Finally, candidate DC-associated genes were predicted based on comparative toxicogenomics database. A total of 529 DEGs (138 up- and 391 down-regulated) in DC-derived fibroblasts were screened and compared with carpal tunnel-derived fibroblasts. Only ten DC-associated genes, such as neurotrophin 3 (NTF3) and protein kinase C, epsilon (PRKCE), were further screened. In addition, NTF3 was significantly enriched in MAPK signaling pathway, in which other DEGs, such as nuclear receptor subfamily 4, group A, member 1 (NR4A1), fibroblast growth factor 22 (FGF22) and BDNF, were enriched. Besides, NTF3 could co-express with fibrillin 2 (FBN2), and PRKCE could co-express with zinc finger protein 516 (ZNF516), solute carrier organic anion transporter family, member 2A1 (SLCO2A1), chromosome 10 open reading frame 10 (C10orf10) and Kelch domain containing 7A (KLHDC7A). Our study indicates that these DEGs, including NTF3, FBN2, NR4A1, FGF22, BDNF, PRKCE, ZNF516, SLCO2A1, C10orf10 and KLHDC7A, may play important roles in DC development and serve as candidate molecular targets for treating DC.

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    Authors and Affiliations

    1. Department of Hand Surgery, China-Japan Union Hospital of Jilin University, 126 Xiantai Street, Changchun, 130031, China

      Haoyu Liu, Weitian Yin, Biao Liu, Yan Liu, Baofeng Guo & Zhuang Wei

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    1. Haoyu Liu
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    2. Weitian Yin
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    3. Biao Liu
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    4. Yan Liu
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    6. Zhuang Wei
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    Correspondence to Zhuang Wei.

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    Haoyu Liu and Weitian Yin have contributed equally to this work.

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    Liu, H., Yin, W., Liu, B. et al. Screening of candidate genes in fibroblasts derived from patients with Dupuytren’s contracture using bioinformatics analysis. Rheumatol Int 35, 1343–1350 (2015). https://doi.org/10.1007/s00296-015-3276-3

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