综合建模确定人类癌症中与遗传起源相关的分子相关性。
Integrative modeling identifies genetic ancestry-associated molecular correlates in human cancer.
机构信息
Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC V5Z 4S6, Canada.
Buck Institute for Research on Aging, Novato, CA 94945, USA.
出版信息
STAR Protoc. 2021 Apr 19;2(2):100483. doi: 10.1016/j.xpro.2021.100483. eCollection 2021 Jun 18.
Cellular and molecular aberrations contribute to the disparity of human cancer incidence and etiology between ancestry groups. Multiomics profiling in The Cancer Genome Atlas (TCGA) allows for querying of the molecular underpinnings of ancestry-specific discrepancies in human cancer. Here, we provide a protocol for integrative associative analysis of ancestry with molecular correlates, including somatic mutations, DNA methylation, mRNA transcription, miRNA transcription, and pathway activity, using TCGA data. This protocol can be generalized to analyze other cancer cohorts and human diseases. For complete details on the use and execution of this protocol, please refer to Carrot-Zhang et al. (2020).
细胞和分子异常导致了不同人群癌症发病率和病因的差异。癌症基因组图谱 (TCGA) 的多组学分析允许查询人类癌症中与祖先特异性差异相关的分子基础。在这里，我们提供了一种使用 TCGA 数据对与分子相关的祖先进行综合关联分析的方案，包括体细胞突变、DNA 甲基化、mRNA 转录、miRNA 转录和途径活性。该方案可推广用于分析其他癌症队列和人类疾病。有关此方案的使用和执行的完整详细信息，请参阅 Carrot-Zhang 等人（2020 年）。
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