The Dynamic Regulatory Events Miner (DREM) allows one to model, analyze,
and visualize
transcriptional gene regulation dynamics. The method of DREM takes as input time series gene expression
data and static transcription factor-gene interaction data (e.g. ChIP-chip data), and
produces as output a dynamic regulatory map.
The dynamic regulatory map highlights major bifurcation events in the time series expression data
and transcription factors potentially responsible for them. See the manual and papers below for more
details.
DREM was applied to E. coli in the paper:
J. Ernst, Q.K. Beg, K.A. Kay, G. Balázsi, Z.N. Oltvai, Z. Bar-Joseph
A Semi-Supervised Method for Predicting Transcription Factor-Gene Interactions in Escherichia coli.
PLoS Computational Biology, in press. Click
here for Support Information specific to that paper.
