Article |
T-STAG: resource and web-interface for tissue-specific transcripts and genes
Computational Molecular Biology, Max Planck Institute for Molecular Genetics Ihnestraße 63-73, D-14195 Berlin, Germany
*To whom correspondence should be addressed. Tel: +49 30 8413 1163; Fax: +49 30 8413 1152; Email: gupta{at}molgen.mpg.de
Received October 21, 2004. Revised November 24, 2004. Accepted November 24, 2004.
T-STAG (tissue-specific transcripts and genes) is a resource and web-interface, designated to analyze tissue/tumor-specific expression patterns in human and mouse transcriptomes. It integrates our refined prediction of specific expression patterns both in genes as well as in individual isoforms with man–mouse orthology data. In combination with the features for combining/contrasting the genes expressed in different tissues, T-STAG implicates important biological applications, such as the detection of differentially expressed genes in tumors, the retrieval of orthologs with significant expression in the same tissue etc. Additionally, our refined categorization of expressed sequence tags (ESTs) according to the normalization of cDNA libraries allows searching for putative low-abundant transcripts. The results are tightly linked to our visualization tools, GeneNest (expression patterns of genes) and SpliceNest (gene structure and alternative splicing). The user-friendly interface of T-STAG offers a platform for comprehensive analysis of tissue and/or tumor-specific expression patterns revealed by the EST data. T-STAG is freely accessible at http://tstag.molgen.mpg.de.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  H. G. Roider, B. Lenhard, A. Kanhere, S. A. Haas, and M. Vingron CpG-depleted promoters harbor tissue-specific transcription factor binding signals--implications for motif overrepresentation analyses Nucleic Acids Res., October 1, 2009; 37(19): 6305 - 6315. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. G. Roider, T. Manke, S. O'Keeffe, M. Vingron, and S. A. Haas PASTAA: identifying transcription factors associated with sets of co-regulated genes Bioinformatics, February 15, 2009; 25(4): 435 - 442. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Lee, Y. Lee, B. Kim, Y. Shin, S. Nam, P. Kim, N. Kim, W.-H. Chung, J. Kim, and S. Lee ECgene: an alternative splicing database update Nucleic Acids Res., January 12, 2007; 35(suppl_1): D99 - D103. [Abstract] [Full Text] [PDF]
|
|