DREM
Dynamic Regulatory Events Miner
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 or dynamic transcription factor-gene interaction data (e.g. ChIP-seq, 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.
Citation:
Ernst J, Vainas O, Harbison CT, Simon I, and Bar-Joseph Z.
Reconstructing dynamic regulatory maps.
Nature-EMBO Molecular Systems Biology, 3:74, 2007.
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