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Screening for Metastatic Osteosarcoma Biomarkers with a DNA Microarray

  • Diao, Chun-Yu (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University) ;
  • Guo, Hong-Bing (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University) ;
  • Ouyang, Yu-Rong (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University) ;
  • Zhang, Han-Cong (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University) ;
  • Liu, Li-Hong (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University) ;
  • Bu, Jie (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University) ;
  • Wang, Zhi-Hua (Chenzhou No.1 People's Hospital) ;
  • Xiao, Tao (Traumatic Orthopedic Research, Department of Orthopaedics, The Second Xiangya Hospital of Central South University)
  • Published : 2014.02.28

Abstract

Objective: The aim of this study was to screen for possible biomarkers of metastatic osteosarcoma (OS) using a DNA microarray. Methods: We downloaded the gene expression profile GSE49003 from Gene Expression Omnibus database, which included 6 gene chips from metastatic and 6 from non-metastatic OS patients. The R package was used to screen and identify differentially expressed genes (DEGs) between metastatic and non-metastatic OS patients. Then we compared the expression of DEGs in the two groups and sub-grouped into up-regulated and down-regulated, followed by functional enrichment analysis using the DAVID system. Subsequently, we constructed an miRNA-DEG regulatory network with the help of WebGestalt software. Results: A total of 323 DEGs, including 134 up-regulated and 189 down-regulated, were screened out. The up-regulated DEGs were enriched in 14 subcategories and most significantly in cytoskeleton organization, while the down-regulated DEGs were prevalent in 13 subcategories, especially wound healing. In addition, we identified two important miRNAs (miR-202 and miR-9) pivotal for OS metastasis, and their relevant genes, CALD1 and STX1A. Conclusions: MiR-202 and miR-9 are potential key factors affecting the metastasis of OS and CALD1 and STX1A may be possible targets beneficial for the treatment of metastatic OS. However, further experimental studies are needed to confirm our results.

Keywords

Metastatic osteosarcoma;differential gene expression;functional enrichment;miRNA;regulatory network

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