识别可复制的转录调节器同表达模式与单细胞转录组学
Alexander Morin1,2,3, C Pan Chu1,2,3, Paul Pavlidis1,2
1Michael Smith Laboratories, University of British Columbia, Vancouver, BC, Canada.
bioRxiv : the preprint server for biology
|April 1, 2024
概括
这项研究利用单细胞RNA测序数据绘制了与人类和小鼠转录调节器 (TRs) 的基因表达协调图. 结果揭示了可复制的协同表达模式,有助于识别跨物种的基因调节相互作用.
科学领域:
- 基因组学就是基因组学.
- 计算生物学 计算生物学
- 分子生物学分子生物学
背景情况:
- 单细胞转录组学能够详细研究基因转录调节.
- 了解转录调节器 (TR) 基因合作伙伴对于破译细胞过程至关重要.
研究的目的:
- 识别与人类和小鼠转录调节器 (TRs) 共同表达的基因伴侣在各种生物环境中.
- 评估TR同表达特征在物种内部和物种之间的一致性和可重现性.
主要方法:
- 组装了120个人类和103个小鼠单细胞RNA测序数据集 (>2800万个细胞).
- 构建了人类和小鼠TRs的单细胞同表达网络.
- 在细胞类型和物种中优先重复可重复的共同表达模式.
- 集成的协同表达数据与ChIP-seq信息,以确定候选的监管相互作用.
主要成果:
- 开发了每个TR的单细胞同表达排名,恢复已知的目标.
- 证明了聚合的共同表达数据在识别TR目标方面与ChIP-seq相竞争.
- 通过跨物种的联合表达和ChIP-seq数据支持的确定了候选调节相互作用.
- 为神经TR ASCL1.1突出显示的相互作用.
结论:
- 聚合的单细胞联合表达网络提供了一种强大的方法来识别TR基因合作伙伴.
- 对同表达模式的跨物种分析提高了已识别的调节相互作用的可靠性.
- 汇编的信息为研究界提供了有价值的资源,ASCL1互动就是一个很好的例子.
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