Gene co-opening network deciphers gene functional relationships
Gene co-opening network deciphers gene functional relationships
复制标题
基因共开放网络破译基因功能关系
DOI：
10.1039/c7mb00430c
复制
发表时间：
2017-11-01
影响因子：
--
通讯作者：
Jiang, Rui
中科院分区：
文献类型：
--
作者：
Li, Wenran;Wang, Meng;Jiang, Rui
基因组测序技术已经产生了海量的基因组和表观基因组数据，为我们从表观基因组学的角度研究全球范围内的基因功能提供了很好的机会。在过去的十年中，基于网络的研究，如基于PPI网络和共表达网络的研究，在捕捉基因之间的功能关系方面表现出了良好的性能。然而，基因的功能以及基因之间相互作用的机制仍然不完全清楚。在这里，我们构建了一个基于基因染色质可及性的基因共开放网络。我们发现，与特定生物过程或同一疾病相关的基因往往聚集在共同开放的网络中。这种理解使我们能够从网络中检测功能簇，并预测基因的新功能。我们进一步应用该网络对银屑病的疾病基因进行优先排序，并展示了共同开放网络和GWAS数据的联合分析在识别疾病基因方面的威力。综上所述，共同开放网络为阐明基因关联和解释疾病机制提供了新的视角。
Genome sequencing technology has generated a vast amount of genomic and epigenomic data, and has provided us a great opportunity to study gene functions on a global scale from an epigenomic view. In the last decade, network-based studies, such as those based on PPI networks and co-expression networks, have shown good performance in capturing functional relationships between genes. However, the functions of a gene and the mechanism of interaction of genes with each other to elucidate their functions are still not entirely clear. Here, we construct a gene co-opening network based on chromatin accessibility of genes. We show that genes related to a specific biological process or the same disease tend to be clustered in the co-opening network. This understanding allows us to detect functional clusters from the network and to predict new functions for genes. We further apply the network to prioritize disease genes for Psoriasis, and demonstrate the power of the joint analysis of the co-opening network and GWAS data in identifying disease genes. Taken together, the co-opening network provides a new viewpoint for the elucidation of gene associations and the interpretation of disease mechanisms.