Analysis of Motif Enrichment (AME) seeks to determine which DNA-binding transcription factors control the transcription of a set of genes by detecting enrichment of known binding motifs in the genes’ regulatory regions. AME is currently available for many metazoan species including human, fruit fly, planaria, flowering plants and mouse. AME is now part of the MEME Suite.
A slight variant to AME is RAMEN (Regression Analysis of Motif ENrichment).