International Conference on Microbiology edition:2013 location:Bremen date:10-13 March 2013
Nowadays omics experiments are commonly used in wet lab practice to identify leads involved in interesting phenotypes. These omics experiments often result in unstructured gene lists of which interpretation in terms of pathways or mode of action is challenging. To aid in the interpretation of these gene lists, we developed PheNetic a decision theoretic method that exploits publicly available information, captured in a comprehensive interaction network to obtain a mechanistic view on the listed genes i. PheNetic selects from the comprehensive interaction network the sub-networks highlighted by these gene lists. We applied PheNetic on a E. coli interaction network to reanalyze a publicly available dataset assessing gene expression of 27 Escherichia coli knock-out mutants under mild acidic conditions. Being able to unveil in an unsupervised way previously described mechanisms involved in acid resistance demonstrated both the performance of our method and the added value of our integrated E. coli network.