PlantNATsDB: a comprehensive database of plant natural antisense transcripts
PlantNATsDB: a comprehensive database of plant natural antisense transcripts
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PlantNATsDB：植物天然反义转录本的综合数据库
DOI：
10.1093/nar/gkr823
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发表时间：
2012-01-01
影响因子：
14.9
通讯作者：
Chen, Ming
中科院分区：
文献类型：
--
作者：
Chen, Dijun;Yuan, Chunhui;Chen, Ming
天然反义转录物（Natural antisense transcripts，NAT）作为一类调控RNA，广泛存在于植物基因组中，在植物的生理和病理过程中发挥着重要作用。虽然它们的重要生物学功能已被广泛报道，但迄今为止缺乏一个全面的数据库。因此，我们构建了一个植物NAT数据库（PlantNATsDB），涉及约200万NAT对69种植物。整合GO注释和目前可用的高通量小RNA测序数据来研究NAT的生物学功能。PlantNATsDB提供了各种用户友好的Web界面，以方便NAT的呈现，并提供了一个集成的图形网络浏览器，以显示由不同NAT组成的复杂网络。此外，设计了一个基于GO注释的“基因集分析”模块，从特定的NAT网络中挖掘出统计上显著过代表的GO类别。PlantNATsDB是目前植物界最全面的NATs资源库，可以作为研究NATs调控功能的参考数据库。PlantNATsDB可在http://bis.zju.edu.cn/pnatdb/上免费获得。
Natural antisense transcripts (NATs), as one type of regulatory RNAs, occur prevalently in plant genomes and play significant roles in physiological and pathological processes. Although their important biological functions have been reported widely, a comprehensive database is lacking up to now. Consequently, we constructed a plant NAT database (PlantNATsDB) involving approximately 2 million NAT pairs in 69 plant species. GO annotation and high-throughput small RNA sequencing data currently available were integrated to investigate the biological function of NATs. PlantNATsDB provides various user-friendly web interfaces to facilitate the presentation of NATs and an integrated, graphical network browser to display the complex networks formed by different NATs. Moreover, a ‘Gene Set Analysis’ module based on GO annotation was designed to dig out the statistical significantly overrepresented GO categories from the specific NAT network. PlantNATsDB is currently the most comprehensive resource of NATs in the plant kingdom, which can serve as a reference database to investigate the regulatory function of NATs. The PlantNATsDB is freely available at http://bis.zju.edu.cn/pnatdb/.