增强器网络的模块化组织在哺乳动物发育中提供了转录的稳定性
Hongli Lin1, Xinyun Ye1, Wenyan Chen2
1State Key Laboratory of Cellular Stress Biology, Xiang'an Hospital, School of Life Sciences, Faculty of Medicine and Life Sciences, Xiamen University, No. 4221, Xiang'an South Road, Xiamen, Fujian 361102, China.
Nucleic acids research
|January 16, 2025
概括
我们开发了eNet 2.0,该工具用于分析控制细胞身份和基因表达在发育和疾病中的增强器网络. 模块增强器网络在各种哺乳动物组织中保持基因表达稳定性.
科学领域:
- 基因组学和生物信息学
- 发展生物学 发展生物学
- 疾病机制 疾病机制
背景情况:
- 增强器集群对于哺乳动物的发育和疾病至关重要,组织成调节细胞身份和疾病基因的网络.
- 控制增强器网络组织和功能的精确机制在很大程度上仍然没有特征,特别是在单细胞分辨率中.
研究的目的:
- 引入eNet 2.0,一个用于分析使用单细胞染色质可访问性数据的增强器网络的计算工具.
- 研究增强器网络在哺乳动物发育和疾病环境中的结构,动态和功能影响.
- 建立eNetDB,一个增强器网络的数据库,该数据库来自对转化酶可访问的染色体测序 (scATAC-seq) 数据集的广泛单细胞测试.
主要方法:
- 开发eNet 2.0,这是一种用于增强网络构建的增强计算工具,包括拓,比较和动态分析.
- 应用eNet 2.0来分析来自人类和小鼠组织的单细胞染色质可访问性数据.
- 将分析的数据集成到eNetDB资源中,以便公众能够访问.
主要成果:
- 识别模块化组织的增强器网络,其中模块间相互作用协同影响基因表达.
- 证明增强器网络拓的变化与发育和疾病期间的异常和动态基因表达模式相关.
- 在各种 scATAC-seq 数据集中验证 eNet 2.0 的稳定性.
结论:
- 模块增强器网络是一种基本的组织原则,有助于哺乳动物的基因表达强度.
- eNet 2.0提供了一个强大的计算框架,用于剖析增强器网络动态在发展和疾病.
- eNetDB是探索各种生物环境中的增强剂监管原则的宝贵资源.
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