Transcription Factor-Binding Site Identification and Enrichment Analysis
Transcription Factor-Binding Site Identification and Enrichment Analysis
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DOI：
10.1007/978-1-0716-1162-3_20
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发表时间：
2021-01-01
期刊：
影响因子：
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通讯作者：
Mor, Gil G.
中科院分区：
文献类型：
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作者：
Guy, Joe L.;Mor, Gil G.
转录因子协调基因表达的复杂调控网络。更好地了解共同的转录因子，以及它们之间的共享的相互作用，一组共调节或差异表达的基因可以提供强大的洞察力的关键途径，管理这样的表达模式。重要的是，这些信息还必须考虑在适当选择的背景中转录因子存在的频率，以及基因和转录因子相互作用的现有证据的背景下。鉴于大量的公开可用的基因表达数据，可以通过这里描述的用户友好的分析工具进一步审查，许多有用的见解肯定会被揭示。用于转录因子结合位点鉴定、富集分析和共调节因子鉴定的分析工具CiiiDER的应用的前述方法应该适用于比较响应于各种刺激的差异基因表达的任何数据集和基因共表达数据集。这些方法应有助于研究人员在确定最相关的监管机构在一个基因集，并完善的目标清单，为未来的研究，以那些可能共享生物学上重要的监管网络。
Transcription factors orchestrate complex regulatory networks of gene expression. A better understanding of the common transcription factors, and their shared interactions, among a set of coregulated or differentially expressed genes can provide powerful insights into the key pathways governing such expression patterns. Critically, such information must also be considered in the context of the frequency in which a transcription factor is present in a properly selected background, and in the context of existing evidence of gene and transcription factor interaction. Given the vast amount of publicly available gene expression data that can be further scrutinized by the user-friendly analysis tools described here, many useful insights are assuredly to be revealed. The proceeding methods for application of the analysis tool CiiiDER for transcription factor-binding site identification, enrichment analysis, and coregulatory factor identification should be applicable to any dataset comparing differential gene expression in response to various stimuli and gene coexpression datasets. These methods should assist the researcher in identifying the most relevant regulators within a gene set, and refining the list of targets for future study to those which may share biologically important regulatory networks.