title: Screening of candidate genes in fibroblasts derived from patients with Dupuytren's contracture using bioinformatics analysis.
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.
authors.affiliation: Department of Hand Surgery, China-Japan Union Hospital of Jilin University, 126 Xiantai Street, Changchun, 130031, China.
authors.forename: Haoyu
authors.initials: H
authors.lastname: Liu
authors.forename: Weitian
authors.initials: W
authors.lastname: Yin
authors.forename: Biao
authors.initials: B
authors.lastname: Liu
authors.forename: Yan
authors.initials: Y
authors.lastname: Liu
authors.forename: Baofeng
authors.initials: B
authors.lastname: Guo
authors.forename: Zhuang
authors.initials: Z
authors.lastname: Wei
mesh_terms: D019208:Brain-Derived Neurotrophic Factor / Q000235:genetics; D002349:Carpal Tunnel Syndrome / Q000235:genetics; D016022:Case-Control Studies; D019295:Computational Biology; D004387:Dupuytren Contracture / Q000235:genetics*; D000071840:Fibrillin-2; D000071837:Fibrillins; D005346:Fibroblast Growth Factors / Q000235:genetics; D005347:Fibroblasts / Q000378:metabolism*; D020869:Gene Expression Profiling; D056726:Genetic Association Studies; D006801:Humans; D047908:Intracellular Signaling Peptides and Proteins; D008840:Microfilament Proteins / Q000235:genetics; D020933:Neurotrophin 3 / Q000235:genetics; D057105:Nuclear Receptor Subfamily 4, Group A, Member 1 / Q000235:genetics; D027361:Organic Anion Transporters / Q000235:genetics; D051744:Protein Kinase C-epsilon / Q000235:genetics; D011506:Proteins / Q000235:genetics
chemical_list: D019208:Brain-Derived Neurotrophic Factor; C506096:DEPP1 protein, human; C000605723:FBN2 protein, human; D000071840:Fibrillin-2; D000071837:Fibrillins; D047908:Intracellular Signaling Peptides and Proteins; D008840:Microfilament Proteins; C539821:NR4A1 protein, human; D020933:Neurotrophin 3; D057105:Nuclear Receptor Subfamily 4, Group A, Member 1; D027361:Organic Anion Transporters; D011506:Proteins; C503526:SLCO2A1 protein, human; D005346:Fibroblast Growth Factors; C579455:BDNF protein, human; C497255:PRKCE protein, human; D051744:Protein Kinase C-epsilon