多组学数据聚类揭示了甲基化表型对整合癌症亚型的可变贡献。
Multilevel omic data clustering reveals variable contribution of methylator phenotype to integrative cancer subtypes.
机构信息
Department of Genetics; Wroclaw Medical University, Wroclaw, Poland.
2nd Department of Internal Medicine, Semmelweis University, Budapest, Hungary.
出版信息
Epigenomics. 2018 Oct;10(10):1289-1299. doi: 10.2217/epi-2018-0057. Epub 2018 Jun 13.
AIM
We aimed to assess to what extent CpG island methylator phenotype (CIMP) contributes to cancer subtypes obtained by multilevel omic data analysis.
MATERIALS & METHODS: 16 The Cancer Genome Atlas datasets encompassing three data layers in 4688 tumor samples were analyzed. We identified cancer integrative subtypes (ISs) by the use of similarity network fusion and consensus clustering. CIMP high (CIMP-H) associated ISs were profiled by gene sets and transcriptional regulators enrichment analysis.
RESULTS & CONCLUSION: In nine out of 16 cancer datasets CIMP-H clusters significantly overlaped with unique ISs. The contribution of CIMP-H on integrative molecular profiling is variable; therefore, only in a subset of cancer types does CIMP-H contribute to homogenous integrative subtype. CIMP-H associated ISs are heterogenous groups with regard to deregulated pathways and transcriptional regulators.
目的
我们旨在评估 CpG 岛甲基化表型（CIMP）在通过多层次组学数据分析获得的癌症亚型中起到何种程度的作用。
材料与方法
分析了包含 4688 个肿瘤样本三个数据层的 16 个癌症基因组图谱数据集。我们使用相似网络融合和共识聚类来确定癌症综合亚型（IS）。通过基因集和转录因子富集分析来分析 CIMP 高（CIMP-H）相关的 IS。
结果与结论
在 16 个癌症数据集的 9 个数据集中，CIMP-H 聚类与独特的 IS 显著重叠。CIMP-H 对综合分子分析的贡献是可变的；因此，只有在一部分癌症类型中，CIMP-H 有助于同质的综合亚型。CIMP-H 相关的 IS 是具有不同失调途径和转录因子的异质群体。
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