TFBScluster:: a resource for the characterization of transcriptional regulatory networks
TFBScluster:: a resource for the characterization of transcriptional regulatory networks
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DOI：
10.1093/bioinformatics/bti461
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发表时间：
2005-07-01
期刊：
影响因子：
5.8
通讯作者：
Göttgens, B
中科院分区：
文献类型：
--
作者：
Donaldson, IJ;Chapman, M;Göttgens, B
人类基因组计划后测序时代的一大挑战将是基因组非编码部分，特别是基因调控序列的功能注释。我们开发了一种新的基于网络的工具 TFBScluster，它可以对多个哺乳动物基因组中保守的转录因子结合位点簇进行全基因组鉴定。可以根据是否存在其他用户定义的 DNA 序列基序或通过限制结合位点的方向或顺序来进一步过滤代表候选基因调控元件的簇。通过电子邮件返回的综合结果文件旨在促进计算确定的候选基因调控序列的实验验证。因此，TFBScluster 有可能有助于破译调节多种哺乳动物发育过程的转录网络。
One major challenge of the post-sequencing era of the human genome project will be the functional annotation of the non-coding portion of the genome, in particular gene regulatory sequences. We have developed a new web-based tool, TFBScluster, which performs genome-wide identification of transcription factor binding site clusters that are conserved in multiple mammalian genomes. Clusters representing candidate gene regulatory elements can be filtered further, based on the presence or absence of additional user-defined DNA sequence motifs or by constraining the orientation or order of binding sites. Comprehensive results files, returned by email, are designed to facilitate experimental validation of computationally identified candidate gene regulatory sequences. TFBScluster, therefore, has the potential to contribute to deciphering transcriptional networks that regulate a wide range of mammalian developmental processes.