基于迭代支持向量机的集合基因选择的乳腺癌和前列腺癌表达相似性分析

Darius Coelho, Lee Sael
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引用次数: 3

摘要

流行病学和表型证据表明,乳腺癌和前列腺癌具有高度的病理相似性。分析癌症之间的病理相似性可以在几个方面有益,例如使癌症研究之间的知识转移。为了了解乳腺癌和前列腺癌病理之间的相似性,研究了受这两种癌影响的共同基因。通过TCGA联盟提供的RNA-seq实验提取的基因表达数据用于基因选择。采用基于迭代支持向量机的集成特征选择方法进行基因选择。基于迭代支持向量机的基因选择方法可以同时考虑相关基因表达,集合方法可以稳定选择。根据分析结果,选择转谷氨酰胺酶4 (TGM4)和补体组分4A (C4A)两个基因作为常见的改变基因。这两种基因与两种癌症的直接关系尚未得到证实。然而,已知TGM4与腺癌有关,C4A与卵巢癌有关。因此提供了证据,证明它们可能是这两种癌症的重要病理基因。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Breast and prostate cancer expression similarity analysis by iterative SVM based ensemble gene selection
Epidemiologic and phenotypic evidences indicate that breast and prostate cancers have high pathological similarities. Analysis of pathological similarities between cancers can be beneficial in several aspects such as enabling the knowledge transfer between the cancer studies. To gain knowledge of the similarity between the breast and prostate cancer pathology, common genes that are affected by the two carcinomas are investigated. Gene expression data extracted from RNA-seq experiments, provided through TCGA consortium, is used for gene selection. Gene selection was performed using an iterative SVM based ensemble feature selection approach. Iterative SVM-based gene selection methods enable correlated gene expressions to be considered simultaneously and ensemble approach stabilizes the selection. As results of the analysis, two genes, Transglutaminase 4 (TGM4) and complement component 4A (C4A), were selected as commonly altered genes. Direct relationships of the two genes to the two cancers are not confirmed. However, TGM4 is known to be associated with adenocarcinomas and C4A with ovarian cancer. Thus provides evidence that they maybe pathologically important genes for the two cancers.
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