open source framework for promoter analysis based on a fast search engine using enhanced suffix arrays. We have implemented several statistics for calculating over-representation of motifs in a set of promoters from co-regulated genes compared to a background set. A comparison of the different statistics is available in our PLoS ONE article describing the software.

Asap is currently undergoing rapid development by to include new and more complex types of analyses.

If you choose to use this framework in your publication please cite:

Marstrand TT, Frellsen J, Moltke I, Thiim M, Valen E, Retelska D, Krogh A: Asap: a framework for over-representation statistics for transcription factor binding sites. PLoS ONE 2008, 3(2):e1623

Asap is an