通过聚合ChIP-seq和扰乱表达数据集来描述转录调节器的目标
Alexander Morin1,2,3, Eric Ching-Pan Chu1,2,3, Aman Sharma1
1Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada.
Genome research
|June 12, 2023
概括
本研究提出了一个工作流程,以整合ChIP-seq和转录调节器 (TR) 扰动数据. 它对人类和小鼠的TR-目标相互作用进行了排名,为研究人员提供了有价值的基因摘要.
科学领域:
- 基因组学和分子生物学
- 基因法规 基因法规
- 生物信息学是一种生物信息学.
背景情况:
- 在基因组学中,对转录调节器 (TRs) 的基因目标进行映射至关重要.
- 现有的CHIP-seq和TR扰动数据显示不太重叠,需要综合分析.
- 在科学文献中存在大量的TR特定数据.
研究的目的:
- 开发和介绍一个工作流程,用于识别,处理和聚合ChIP-seq和TR扰动实验.
- 通过整合多种数据类型来对人类和小鼠的转录调节器-目标相互作用进行排名.
- 为社区使用提供经验性排名的TR目标列表和透明的基因摘要.
主要方法:
- 对八个关键调节器进行了497次ChIP-seq和TR扰动实验的识别和统一处理.
- 来自这两种基因组学方法的数据的聚合.
- 对综合排名的评估与独立的,经过文献策划的证据进行评估.
主要成果:
- 检查CHIP-seq和TR扰动数据之间的数据一致性和系统模式.
- 确定人类和小鼠TRs之间的假定正统相互作用.
- 生成经验排序的TR-目标交互列表.
结论:
- 开发的工作流程有效地集成了ChIP-seq和TR扰动数据,用于排名TR-target交互.
- 该研究提供了一个可扩展到其他TR的框架,并为研究界提供了有价值,透明的数据资源.
- 整合多种实验策略可以提高基因调节见解的可靠性.
更多相关视频
12:54Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
Published on: March 7, 2018
13.6K
07:23Describing a Transcription Factor Dependent Regulation of the MicroRNA Transcriptome
Published on: June 15, 2016
8.5K
相关概念视频
02:23Master Transcription Regulators
7.0K
Master transcription regulators are regulatory proteins that are predominantly responsible for regulating the expression of multiple genes. Often these genes work in concert to drive a complex process. Activation of a master transcription regulator can lead to a cascade of transcriptional activation necessary for that outcome. These regulators can directly bind to the regulatory sequences of the various genes involved, or they can indirectly regulate transcription by binding to regulatory...
7.0K
02:33Combinatorial Gene Control
8.4K
Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
8.4K