Okumura Toshiyuki, Makiguchi Hiroki, Makita Yuko, Yamashita Riu, Nakai Kenta
Mitsui Knowledge Industry Co. Ltd, University of Tokyo, Japan.
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W227-31. doi: 10.1093/nar/gkm362. Epub 2007 May 30.
We present the second version of Melina, a web-based tool for promoter analysis. Melina II shows potential DNA motifs in promoter regions with a combination of several available programs, Consensus, MEME, Gibbs sampler, MDscan and Weeder, as well as several parameter settings. It allows running a maximum of four programs simultaneously, and comparing their results with graphical representations. In addition, users can build a weight matrix from a predicted motif and apply it to upstream sequences of several typical genomes (human, mouse, S. cerevisiae, E. coli, B. subtilis or A. thaliana) or to public motif databases (JASPAR or DBTBS) in order to find similar motifs. Melina II is a client/server system developed by using Adobe (Macromedia) Flash and is accessible over the web at http://melina.hgc.jp.
我们展示了Melina的第二个版本，这是一个基于网络的启动子分析工具。Melina II通过结合多个可用程序（Consensus、MEME、Gibbs采样器、MDscan和Weeder）以及多种参数设置，展示启动子区域潜在的DNA基序。它允许同时运行最多四个程序，并通过图形表示比较它们的结果。此外，用户可以从预测的基序构建权重矩阵，并将其应用于几个典型基因组（人类、小鼠、酿酒酵母、大肠杆菌、枯草芽孢杆菌或拟南芥）的上游序列或公共基序数据库（JASPAR或DBTBS），以寻找相似的基序。Melina II是一个使用Adobe（Macromedia）Flash开发的客户端/服务器系统，可通过网络在http://melina.hgc.jp上访问。
