Regulate-SAGE: Mining Software for Serial Analysis of Gene Expression Data

Abstract

SAGE (serial analysis of gene expression) is a powerful method that allows the analysis of complete gene expression patterns with computer-aided digital analysis. SAGE libraries are available in both NCBI and NCI-CGAP for paralleled comparison on-line. However, the multiple-group comparisons among SAGE libraries are still challenging, especially for mining of tissue-specific gene candidates. We had developed an effective stand-alone software for analyzing SAGE data. In the first module, biologists can mine the regulative information of genes among different SAGE libraries and make the cross-analysis and comparison in various genes. In the second module, our proposed software also provides a friendly platform to query gene expression of interested SAGE tags in a selected SAGE library. Moreover, analyzing SAGE data in various organisms are acceptable. We are the first to provide friendly cross-analyzing and comparative interface of SAGE libraries to our knowledge. It is very important for transcriptomic studies in silico in cost-effective manner. Availability: ftp://regulateSAGE@bio.kuas.edu.tw/2008 0824-RegulateSAGE.zip