Conceptual example using the enhanced MADE algorithm. Workflow for integrating expression data from evolved bacterial cultures using TIGER's enhanced MADE algorithm. Parent strain P splits into strains A and B. Strain A further diverges into strains A1 and A2. Expression data indicates fold change between different strains for each gene. The interaction matrix indicates that the first column of fold changes represents a change from P to A, the second column from P to B, etc. The expression data and the interaction matrix are combined to create gene states for each bacterial strain.
Jensen et al. BMC Systems Biology 2011 5:147 doi:10.1186/1752-0509-5-147