A Bioinformatics Approach for Identifying Candidate Transcriptional Regulators of Mesenchyme-to-Epithelium Transitions in Mouse Embryos
A Bioinformatics Approach for Identifying Candidate Transcriptional Regulators of Mesenchyme-to-Epithelium Transitions in Mouse Embryos
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DOI：
10.1002/dvdy.21652
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发表时间：
2008-10-01
影响因子：
2.5
通讯作者：
Aitken, Stuart
中科院分区：
文献类型：
--
作者：
Bard, Jonathan B. L.;Lam, Mei Sze;Aitken, Stuart
本文报道了一种鉴定与小鼠发育过程中经历特定过程的组织相关的基因组的方法。给定每个组织开始该过程的Theiler阶段，布尔交叉分析识别在该过程开始之前和一旦其开始时在这些组织中的一些或全部中表达的基因。该分析在GXD搜索中实现;该工具从GXD（小鼠基因表达数据库）下载适当的基因集，并执行计算。应用于间充质到上皮转化（MET），GXD搜索已经确定了Crabp 1和六个转录调节因子（Cited1，Cited2，Meox 1，Lhx 1，Foxc 1和Foxc 2），它们通常在即将经历这一过程的组织中表达。这些转录调节因子的表达模式分析表明，每个转录调节因子中的突变都会影响上皮发育，表明该基因组在其他组织中不表达，因此它们是调节MET的候选者。GXD搜索可从www.example.com下载。Developmental Dynamics 237：2748 - 2754，2008. (C)2008 Wiley-Liss，Inc.
This article reports a method for identifying groups of genes associated with tissues undergoing a particular process during mouse development. Given the Theiler stage at which each tissue starts the process, Boolean intersection analysis identifies genes expressed in some or all of these tissues both before the process starts and once it has started. This analysis is implemented in GXD-search; this tool downloads appropriate gene sets from GXD, the mouse gene expression database, and performs the calculations. Applied to mesenchyme-to-epithelium transitions (MET), GXD-search has identified Crabp1 and six transcriptional regulators (Cited1, Cited2, Meox1, Lhx1, Foxc1, and Foxc2) that are usually expressed in tissues about to undergo this process. Expression pattern analysis of these transcriptional regulators, mutations in each of which affect epithelial development, shows that this gene set is expressed in no other tissues and they are, thus, candidates for regulating MET. GXD-search is downloadable from http://www.aiai.ed.ac.uk/project/biosphere/GXD-search.html. Developmental Dynamics 237:2748-2754, 2008. (C) 2008 Wiley-Liss, Inc.