REDUCE:: an online tool for inferring cis-regulatory elements and transcriptional module activities from microarray data
REDUCE:: an online tool for inferring cis-regulatory elements and transcriptional module activities from microarray data
复制标题
DOI：
10.1093/nar/gkg630
复制
发表时间：
2003-07-01
影响因子：
14.9
通讯作者：
Bussemaker, HJ
中科院分区：
文献类型：
--
作者：
Roven, C;Bussemaker, HJ
REDUCE是一种基于基序的微阵列回归分析方法。唯一需要的输入是(i)单个全基因组的绝对或相对mRNA丰度和（ii）与所探测的每个基因相关的调控区域的DNA序列。目前支持的生物有酵母、蠕虫和苍蝇；我们目前的方法能否用于老鼠或人类，这是一个悬而未决的问题。REDUCE使用无偏统计来识别基因调控区域中与mRNA表达水平相关的寡核苷酸基序。回归分析用于推断与每个基序相关的转录模块的活性。REDUCE可在线访问http://bussemaker.bio.columbia.edu/reduce/。这个网站提供了上传和管理微阵列数据的功能。REDUCE分析结果可以查看和下载，并且可以选择与其他用户共享或公开访问。
REDUCE is a motif-based regression method for microarray analysis. The only required inputs are (i) a single genome-wide set of absolute or relative mRNA abundances and (ii) the DNA sequence of the regulatory region associated with each gene that is probed. Currently supported organisms are yeast, worm and fly; it is an open question whether in its current incarnation our approach can be used for mouse or human. REDUCE uses unbiased statistics to identify oligonucleotide motifs whose occurrence in the regulatory region of a gene correlates with the level of mRNA expression. Regression analysis is used to infer the activity of the transcriptional module associated with each motif. REDUCE is available online at http://bussemaker.bio.columbia.edu/reduce/. This web site provides functionality for the upload and management of microarray data. REDUCE analysis results can be viewed and downloaded, and optionally be shared with other users or made publicly accessible.