Chang Li-Wei, Fontaine Burr R, Stormo Gary D, Nagarajan Rakesh
Department of Biomedical Engineering, Washington University, St. Louis, MO 63130, USA.
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W238-44. doi: 10.1093/nar/gkm308. Epub 2007 May 21.
Given the recent explosion of publications that employ microarray technology to monitor genome-wide expression and that correlate these expression changes to biological processes or to disease states, the determination of the transcriptional regulation of these co-expressed genes is the next major step toward deciphering the genetic network governing the pathway or disease under study. Although computational approaches have been proposed for this purpose, there is no integrated and user-friendly software application that allows experimental biologists to tackle this problem in higher eukaryotes. We have previously reported a systematic, statistical model of mammalian transcriptional regulatory sequence analysis. We have now made crucial extensions to this model and have developed a comprehensive, user-friendly web application suite termed the Promoter Analysis Pipeline (PAP). PAP is available at: http://bioinformatics.wustl.edu/webTools/portalModule/PromoterSearch.do.
鉴于近期大量使用微阵列技术监测全基因组表达并将这些表达变化与生物过程或疾病状态相关联的出版物激增，确定这些共表达基因的转录调控是朝着破译所研究途径或疾病的遗传网络迈出的下一个重要步骤。尽管已为此目的提出了计算方法，但尚无集成且用户友好的软件应用程序使实验生物学家能够解决高等真核生物中的这一问题。我们之前报道过一种哺乳动物转录调控序列分析的系统统计模型。我们现在对该模型进行了关键扩展，并开发了一个全面、用户友好的网络应用程序套件，称为启动子分析管道（PAP）。PAP可在以下网址获取：http://bioinformatics.wustl.edu/webTools/portalModule/PromoterSearch.do。
