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基因表达数据中揭示的一种新型随机依赖性。

A new type of stochastic dependence revealed in gene expression data.

作者信息

Klebanov Lev, Jordan Craig, Yakovlev Andrei

机构信息

Department of Probability and Statistics, Charles University.

出版信息

Stat Appl Genet Mol Biol. 2006;5:Article7. doi: 10.2202/1544-6115.1189. Epub 2006 Mar 6.


DOI:10.2202/1544-6115.1189
PMID:16646871
Abstract

Modern methods of microarray data analysis are biased towards selecting those genes that display the most pronounced differential expression. The magnitude of differential expression does not necessarily indicate biological significance and other criteria are needed to supplement the information on differential expression. Three large sets of microarray data on childhood leukemia were analyzed by an original method introduced in this paper. A new type of stochastic dependence between expression levels in gene pairs was deciphered by our analysis. This modulation-like unidirectional dependence between expression signals arises when the expression of a "gene-modulator'' is stochastically proportional to that of a "gene-driver''. A total of more than 35% of all pairs formed from 12550 genes were conservatively estimated to belong to this type. There are genes that tend to form Type A relationships with the overwhelming majority of genes. However, this picture is not static: the composition of Type A gene pairs may undergo dramatic changes when comparing two phenotypes. The ability to identify genes that act as ;;modulators'' provides a potential strategy of prioritizing candidate genes.

摘要

现代微阵列数据分析方法倾向于选择那些表现出最显著差异表达的基因。差异表达的程度不一定表明生物学意义,还需要其他标准来补充差异表达的信息。本文采用一种原创方法对三组关于儿童白血病的大型微阵列数据进行了分析。通过我们的分析,解读出了基因对中表达水平之间一种新型的随机依赖性。当“基因调节者”的表达与“基因驱动者”的表达呈随机比例关系时,就会出现这种类似调节的表达信号单向依赖性。保守估计,由12550个基因组成的所有基因对中,超过35%属于这种类型。有些基因倾向于与绝大多数基因形成A类关系。然而,这种情况并非一成不变:在比较两种表型时,A类基因对的组成可能会发生巨大变化。识别充当“调节者”的基因的能力为确定候选基因的优先级提供了一种潜在策略。

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A new type of stochastic dependence revealed in gene expression data.

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[2]
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[3]
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[4]
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PLoS One. 2011-10-14

[5]
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[6]
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BMC Genomics. 2010-10-18

[7]
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[8]
Balancing Type One and Two Errors in Multiple Testing for Differential Expression of Genes.

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[9]
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[10]
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