鉴定与骨肉瘤及其转移相关的共表达模块和途径。

Identification of co-expression modules and pathways correlated with osteosarcoma and its metastasis.

机构信息

Department of Orthopedics Ward II, Shenzhen Children's Hospital, Shenzhen, 518000, China.

Department of Orthopedics, The Second Hospital of Tianjin Medical University, Tianjin, 300211, China.

出版信息

World J Surg Oncol. 2019 Mar 8;17(1):46. doi: 10.1186/s12957-019-1587-7.

BACKGROUND

Osteosarcoma is the most common bone tumor that occurs in children.

METHODS

To identify co-expression modules and pathways correlated with osteosarcoma and its clinical characteristics, we performed weighted gene co-expression network analysis (WGCNA) on RNA-seq data of osteosarcoma with 52 samples. Then we performed pathway enrichment analysis on genes from significant modules.

RESULTS

A total of 5471 genes were included in WGCNA, and 16 modules were identified. Module-trait analysis identified that a module involved in microtubule bundle formation, drug metabolism-cytochrome P450, and IL-17 signaling pathway was negatively correlated with osteosarcoma and positively correlated with metastasis; a module involved in DNA replication was positively correlated with osteosarcoma; a module involved in cell junction was positively correlated with metastasis; and a module involved in heparin binding negatively correlated with osteosarcoma. Moreover, expression levels in four of the top ten differentially expressed genes were validated in another independent dataset.

CONCLUSIONS

Our analysis might provide insight for molecular mechanisms of osteosarcoma.

背景

骨肉瘤是儿童中最常见的骨肿瘤。

方法

为了鉴定与骨肉瘤及其临床特征相关的共表达模块和通路，我们对来自 52 个样本的骨肉瘤 RNA-seq 数据进行了加权基因共表达网络分析（WGCNA）。然后，我们对显著模块中的基因进行了通路富集分析。

结果

WGCNA 共纳入了 5471 个基因，鉴定出了 16 个模块。模块-特征分析发现，一个涉及微管束形成、药物代谢-细胞色素 P450 和 IL-17 信号通路的模块与骨肉瘤呈负相关，与转移呈正相关；一个涉及 DNA 复制的模块与骨肉瘤呈正相关；一个涉及细胞连接的模块与转移呈正相关；一个涉及肝素结合的模块与骨肉瘤呈负相关。此外，在另一个独立数据集验证了前 10 个差异表达基因中的 4 个基因的表达水平。