一种人类细胞类型中208种染色体相关蛋白的占用地图
E Christopher Partridge1, Surya B Chhetri1,2,3, Jeremy W Prokop1,4
1HudsonAlpha Institute for Biotechnology, Huntsville, AL, USA.
Nature
|July 31, 2020
概括
这项研究绘制了人体细胞中208种染色体相关蛋白质的结合部位,其中包括171种转录因子. 这些数据揭示了促进剂和增强剂的独特结合模式,进步了对基因调控网络的理解.
科学领域:
- 基因组学
- 分子生物学
- 生物信息学
背景情况:
- 转录因子是调节基因表达的关键DNA结合蛋白.
- 了解转录因子结合对于解读生物过程至关重要.
- 大多数人类转录因子在基因组占用方面仍然没有特征.
研究的目的:
- 在人类HepG2细胞系中生成大量染色质相关蛋白 (CAP) 的全基因组占用图.
- 分析转录因子和辅因子的结合特征,以了解基因调节.
- 扩大转录因子结合动机的目录及其与监管元素的关联.
主要方法:
- 对208个CAP进行了染色体免疫沉,随后进行了高通量测序 (ChIP-seq).
- 使用人类HepG2细胞系进行实验.
- 使用生物信息分析来确定结合部位,动机和模式.
主要成果:
- 对208种CAP (171种转录因子,37种辅助因子) 的结合特征进行了映射,占HepG2细胞中近四分之一的CAP.
- CAP结合模式被分类为主要与促进剂,增强剂或两者相关.
- 已确定转录因子图案的扩展目录,包括共同丰富模式 (例如,FOX图案与其他37种CAP).
- 激素含量和占用模式成功地区分了促进剂和增强剂.
- 确定的目标地区占用率很高,有大量的CAP关联,但只有部分相关因素的动机存在.
结论:
- 这项研究提供了HepG2细胞中的基因调控网络的全面概述.
- 产生的数据和分析有助于更好地理解转录因子的结合和功能.
- 这项工作强调了像ENCODE项目这样的大规模数据生成工作的实用性.
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