ncRNAimprint: a comprehensive database of mammalian imprinted noncoding RNAs.-猫眼课题宝

DOI：

10.1261/rna.2226910

发表时间：

2010-10

期刊：

RNA

影响因子：

4.5

通讯作者：

中科院分区：

生物学3区

文献类型：

--

作者：

Ying Zhang;Dao-Gang Guan;Jianhua Yang;Peng Shao;Hui Zhou;L. Qu

印记非编码RNA（ncRNA）以来源依赖于亲本的方式单等位地表达，这主要在哺乳动物中是明显的。印迹ncRNA是介于印迹基因和非编码RNA之间的一个交叉点，具有独特的特征。与非印迹ncRNA相比，它们可能以非传统方式发挥作用，并且与印迹蛋白编码基因相比，它们对基因组印迹机制的作用更大。越来越多的人类疾病已被证明与印迹ncRNA的异常有关。由于其功能的重要性，近年来发表了许多关于印迹ncRNA的研究;然而，没有系统的收集或描述印迹ncRNA，并且快速增长的知识分散在各个地方。在这里，我们描述了一个新的数据库，ncRNAimprint，作为一个全面的资源中心，哺乳动物的印记ncRNA。使用从相关文献和数据库中提取的信息详细注释了印迹ncRNA的目录，包括snoRNA、microRNA、piRNA、siRNA、反义ncRNA和mRNA样ncRNA。印迹ncRNA相关疾病，印迹控制区（ICR）和印迹区域的全面收集手动编译，为目前的研究重点是印迹ncRNA提供资源。还包括在印迹区域内完全匹配的小RNA深度测序读数，以提供检测新型印迹ncRNA的有用证据，并帮助分析已知印迹ncRNA的表达模式。为了快速检索和可视化这些数据，创建了一个搜索页面，包括四个有效的搜索表单和两个图形浏览器。印迹ncRNA数据库可在http://rnaqueen.sysu.edu.cn/ncRNAimprint上免费访问。

Imprinted noncoding RNAs (ncRNAs) are expressed mono-allelically in a parent-of-origin-dependent manner, which is mainly evident in mammals. Lying at a crossroad between imprinted genes and ncRNAs, imprinted ncRNAs show distinct features. They are likely to function in nontraditional ways compared to non-imprinted ncRNAs, and are much more responsible for the mechanism of genomic imprinting compared to imprinted protein-coding genes. An increasing number of human diseases have been shown to be related to abnormalities in imprinted ncRNAs. Due to their functional importance, many studies focusing on imprinted ncRNAs have been published in recent years; however, there is no systematic collection or description of imprinted ncRNAs and the rapidly growing knowledge is scattered in various places. Here, we describe a new database, ncRNAimprint, which serves as a comprehensive resource center for mammalian imprinted ncRNAs. A catalog of imprinted ncRNAs, including snoRNAs, microRNAs, piRNAs, siRNAs, antisense ncRNAs, and mRNA-like ncRNAs, was annotated in detail using information extracted from relevant literature and databases. Comprehensive collections of imprinted ncRNA-related diseases, imprinting control regions (ICRs), and imprinted regions were manually compiled to provide resources for current research focusing on imprinted ncRNAs. Small RNA deep sequencing reads that fully matched within imprinted regions were also included to offer useful evidence in detecting novel imprinted ncRNAs and to aid in analyzing expression patterns of known imprinted ncRNAs. A search page including four effective search forms and two graphical browsers was created for rapid retrieval and visualization of these data. The imprinted ncRNA database is freely accessible at http://rnaqueen.sysu.edu.cn/ncRNAimprint.