Algorithmic Graph Theory and Perfect Graphs (Annals of Discrete Mathematics, Vol 57)
Algorithmic Graph Theory and Perfect Graphs (Annals of Discrete Mathematics, Vol 57)
Modeling interactome: scale-free or geometric?
Bioinformatics
Scale-free networks versus evolutionary drift
Computational Biology and Chemistry
Chordal graphs in computational biology – new insights and applications
ICCS'06 Proceedings of the 6th international conference on Computational Science - Volume Part II
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We propose a new method for identifying and representing overlapping functional groups within a protein interaction network. We develop a graph-theoretical framework that enables automatic construction of such representation. The proposed representation helps in understanding the transitions between functional groups and allows for tracking a protein's path through a cascade of functional groups. Therefore, depending on the nature of the network, our representation is capable of elucidating temporal relations between functional groups. We illustrate the effectiveness of our method by applying it to TNFα/NF-κB and pheromone signaling pathways.