Cao Yuan, Zhao Yalin, Cha Lei, Ying Xiaomin, Wang Ligui, Shao Ningsheng, Li Wuju
Beijing Institute of Basic Medical Sciences, Taiping Road 27, Haidian district, Beijing 100850, China.
Bioinformation. 2009 Apr 29;3(8):364-6. doi: 10.6026/97320630003364.
In bacteria, there exist some small non-coding RNAs (sRNAs) with 40-500 nucleotides in length. Most of them function as posttranscriptional regulation of gene expression through binding to their target mRNAs, in which Hfq protein acts as RNA chaperone. With the increase of identified sRNA genes in the bacterium, prediction of sRNA targets plays a more important role in determining sRNA functions. However, there are few available computational tools for predicting sRNA targets at present. Here we introduced a web server, sRNATarget, for genome-scale prediction of bacterial sRNA targets. The server is based on a recently published model which uses Naive Bayes method as the supervised method and take RNA secondary structure profile as the feature. The prediction results will be returned to the users through E-mail.
sRNATarget web server is freely available athttp://ccb.bmi.ac.cn/srnatarget/
在细菌中，存在一些长度为40 - 500个核苷酸的小非编码RNA（sRNA）。它们中的大多数通过与靶标mRNA结合来发挥基因表达的转录后调控作用，其中Hfq蛋白作为RNA伴侣。随着细菌中已鉴定的sRNA基因数量的增加，sRNA靶标的预测在确定sRNA功能方面发挥着更重要的作用。然而，目前用于预测sRNA靶标的可用计算工具很少。在这里，我们介绍了一个网络服务器sRNATarget，用于细菌sRNA靶标的全基因组规模预测。该服务器基于最近发表的一个模型，该模型使用朴素贝叶斯方法作为监督方法，并将RNA二级结构概况作为特征。预测结果将通过电子邮件返回给用户。
sRNATarget网络服务器可在http://ccb.bmi.ac.cn/srnatarget/免费获取。
