Institute for Regenerative Medicine, Shanghai East Hospital, Shanghai Key Laboratory of Signaling and Disease Research, Frontier Science Center for Stem Cell Research, School of Life Sciences and Technology, Tongji University, Shanghai, 200092, China.
Department of Cell Biology, Tianjin Medical University, 2011 Collaborative Innovation Center of Tianjin for Medical Epigenetics, Tianjin Key Laboratory of Medical Epigenetics, Qixiangtai Road 22, Tianjin, China.
Genome Biol. 2020 Feb 24;21(1):48. doi: 10.1186/s13059-020-01953-0.
Recently, several non-classical functions of histone modification regulators (HMRs), independent of their known histone modification substrates and products, have been reported to be essential for specific cellular processes. However, there is no framework designed for identifying such functions systematically. Here, we develop ncHMR detector, the first computational framework to predict non-classical functions and cofactors of a given HMR, based on ChIP-seq data mining. We apply ncHMR detector in ChIP-seq data-rich cell types and predict non-classical functions of HMRs. Finally, we experimentally reveal that the predicted non-classical function of CBX7 is biologically significant for the maintenance of pluripotency.
最近，已有报道称组蛋白修饰调控因子（HMRs）的几种非经典功能与其已知的组蛋白修饰底物和产物无关，对特定的细胞过程至关重要。然而，目前还没有设计用于系统识别这些功能的框架。在这里，我们开发了 ncHMRdetector，这是第一个基于 ChIP-seq 数据挖掘的用于预测给定 HMR 的非经典功能和辅助因子的计算框架。我们在 ChIP-seq 数据丰富的细胞类型中应用 ncHMRdetector，并预测 HMR 的非经典功能。最后，我们通过实验揭示了 CBX7 的预测非经典功能对于维持多能性具有重要的生物学意义。
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