Oncogenomic analysis identifies novel biomarkers for tumor stage mycosis fungoides
Oncogenomic analysis identifies novel biomarkers for tumor stage mycosis fungoides
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DOI：
10.1097/md.0000000000010871
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发表时间：
2018-05-01
期刊：
影响因子：
1.6
通讯作者：
Sun, Jianfang
中科院分区：
文献类型：
--
作者：
Dong, Zhengbang;Zhu, Xiaomei;Sun, Jianfang
真菌病(MF)发展成肿瘤或皮外病变的患者预后通常很差，目前还没有治愈的方法。为了寻找新的肿瘤标记物，对41例皮肤淋巴瘤活检组织进行基因组图谱分析，从基因表达总库(GEO)中获得了MF的基因表达谱数据集。利用加权基因共表达网络分析(WGCNA)模拟基因模块，并以阈值(0.5)筛选软连接基因(HUB基因)。随后，基于KEGG数据库计算了模块特征基因，丰富了重要的生物途径，并基于截止值从整个基因组图谱中收集了3263个基因来模拟四个遗传模块。在黑色模块中发现了与肿瘤分期MF相关的重要疾病遗传术语。随后，CFLAR、GCNT2、IFNG、IL17A、IL22、MIP、PLCG1、PTH、PTPN6、REG1A、SNAP25、SUPT7L和TP63等13个HUB基因被发现与皮肤T细胞淋巴瘤(CTCL)和成人T细胞淋巴瘤/白血病(ATLL)相关。综上所述，除了已报道的CTCL/ATLL基因(IL17F、PLCG1、IFNG和PTH)外，其他高度不稳定的基因可能成为调节CTLT(MF/SS)生物学过程和分子机制的新的生物标志物。
Patients with mycosis fungoides (MF) developing tumors or extracutaneous lesions usually have a poor prognosis with no cure has so far been available. To identify potential novel biomarkers for MF at the tumor stage, a genomic mapping of 41 cutaneous lymphoma biopsies was used to explore for significant genes.The gene expression profiling datasets of MF were obtained from Gene Expression Omnibus database (GEO). Gene modules were simulated using Weighted Gene Co-expression Network Analysis (WGCNA) and the top soft-connected genes (hub genes) were filtrated with a threshold (0.5). Subsequently, module eigengenes were calculated and significant biological pathways were enriched based on the KEGG database.Four genetic modules were simulated with 3263 genes collected from the whole genomic profile based on cutoff values. Significant diseases genetic terminologies associated with tumor stage MF were found in black module. Subsequently, 13 hub genes including CFLAR, GCNT2, IFNG, IL17A, IL22, MIP, PLCG1, PTH, PTPN6, REG1A, SNAP25, SUPT7L, and TP63 were shown to be related to cutaneous T-cell lymphoma (CTCL) and adult T-cell lymphoma/leukemia (ATLL).In summary, in addition to the reported genes (IL17F, PLCG1, IFNG, and PTH) in CTCL/ATLL, the other high instable genes may serve as novel biomarkers for the regulation of the biological processes and molecular mechanisms of CTLT (MF/SS).