Learning a genome-wide score of human-mouse conservation at the functional genomics level.
Learning a genome-wide score of human-mouse conservation at the functional genomics level.
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DOI：
10.1038/s41467-021-22653-8
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发表时间：
2021-05-03
影响因子：
16.6
通讯作者：
Ernst J
中科院分区：
文献类型：
--
作者：
Kwon SB;Ernst J
在小鼠模型研究的背景下，鉴定具有人与小鼠之间具有功能基因组特性的基因组区域是一个重要的挑战。为了解决这个问题，我们开发了一种方法来通过整合来自人类和小鼠的表观基因组，转录因子结合和转录组数据的信息来学习功能基因组学水平上的保护证据。该方法是从综合功能基因组注释（LECIF）中的守恒的学习证据，训练神经网络为人类和小鼠基因组生成此分数。所得的LECIF得分突出显示了具有共同功能基因组特性的人和小鼠区域，并捕获了生物学上相似的人类和小鼠注释的对应关系。使用独立数据集的分析表明，该分数还突出了两个物种中与相似表型相关的基因座。 LECIF将通过识别可能保留功能基因组特性的基因座来成为小鼠模型研究的资源。
了解人和小鼠之间的保守功能基因组特性为小鼠模型研究提供了重要的背景。在这里，作者提出了整个基因组的保护评分，该评分整合了来自小鼠和人类基因组的表观基因组，转录因子结合以及转录组数据。
Identifying genomic regions with functional genomic properties that are conserved between human and mouse is an important challenge in the context of mouse model studies. To address this, we develop a method to learn a score of evidence of conservation at the functional genomics level by integrating information from a compendium of epigenomic, transcription factor binding, and transcriptomic data from human and mouse. The method, Learning Evidence of Conservation from Integrated Functional genomic annotations (LECIF), trains neural networks to generate this score for the human and mouse genomes. The resulting LECIF score highlights human and mouse regions with shared functional genomic properties and captures correspondence of biologically similar human and mouse annotations. Analysis with independent datasets shows the score also highlights loci associated with similar phenotypes in both species. LECIF will be a resource for mouse model studies by identifying loci whose functional genomic properties are likely conserved. Understanding conserved functional genomic properties between human and mouse provides important context for mouse model studies. Here, the authors present a genome-wide conservation score integrating epigenomic, transcription factor binding, and transcriptomic data from mouse and human genomes.
影响因子：
3.7
作者：
Okamura Y;Obayashi T;Kinoshita K
通讯作者：
Kinoshita K