Khatri Purvesh, Desai Valmik, Tarca Adi L, Sellamuthu Sivakumar, Wildman Derek E, Romero Roberto, Draghici Sorin
Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202, USA.
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W626-31. doi: 10.1093/nar/gkl213.
The Onto-Tools suite is composed of an annotation database and eight complementary, web-accessible data mining tools: Onto-Express, Onto-Compare, Onto-Design, Onto-Translate, Onto-Miner, Pathway-Express, Promoter-Express and nsSNPCounter. Promoter-Express is a new tool added to the Onto-Tools ensemble that facilitates the identification of transcription factor binding sites active in specific conditions. nsSNPCounter is another new tool that allows computation and analysis of synonymous and non-synonymous codon substitutions for studying evolutionary rates of protein coding genes. Onto-Translate has also been enhanced to expand its scope and accuracy by fully utilizing the capabilities of the Onto-Tools database. Currently, Onto-Translate allows arbitrary mappings between 28 types of IDs for 53 organisms. Onto-Tools are freely available at http://vortex.cs.wayne.edu/Projects.html.
Onto-Tools套件由一个注释数据库和八个互补的、可通过网络访问的数据挖掘工具组成：Onto-Express、Onto-Compare、Onto-Design、Onto-Translate、Onto-Miner、Pathway-Express、Promoter-Express和nsSNPCounter。Promoter-Express是添加到Onto-Tools工具集中的一个新工具，它有助于识别在特定条件下活跃的转录因子结合位点。nsSNPCounter是另一个新工具，它允许对同义密码子和非同义密码子替换进行计算和分析，以研究蛋白质编码基因的进化速率。Onto-Translate也得到了增强，通过充分利用Onto-Tools数据库的功能来扩大其范围和提高准确性。目前，Onto-Translate允许在53种生物的28种类型的ID之间进行任意映射。Onto-Tools可在http://vortex.cs.wayne.edu/Projects.html上免费获取。
