oPOSSUM -- integrated tools for analysis of regulatory motif over-representation
What you can do:
Detect over-represented transcription factor binding sites in the promoters of sets of genes.
Highlights:
- The identification of over-represented transcription factor binding sites from sets of co-expressed genes provides insights into the mechanisms of regulation for diverse biological contexts.
- oPOSSUM, an internet-based system for such studies of regulation, has been improved and expanded in this new release.
- New features include a worm-specific version for investigating binding sites conserved between Caenorhabditis elegans and C. briggsae, as well as a yeast-specific version for the analysis of co-expressed sets of Saccharomyces cerevisiae genes. The human and mouse applications feature improvements in ortholog mapping, sequence alignments and the delineation of multiple alternative promoters.
- oPOSSUM2, introduced for the analysis of over-represented combinations of motifs in human and mouse genes, has been integrated with the original oPOSSUM system.
- Analysis using user-defined background gene sets is now supported.
- The transcription factor binding site models have been updated to include new profiles from the JASPAR database.
Keywords:
- Binding Sites
- Caenorhabditis elegans
- Gene Expression Profiling
- Gene Expression Regulation
- Humans
- Mice
- NF-kappa B
- Promoter Regions
- Saccharomyces cerevisiae
- Transcription Factors
- regulatory motif
Literature & Tutorials:
This record last updated: 05-30-2008