Abstract
We describe an approach to clustering the yeast protein-protein interaction network in order to identify functional modules, groups of proteins forming multi-protein complexes accomplishing various functions in the cell. We have developed a clustering method that accounts for the small-world nature of the network. The algorithm makes use of the concept of k-cores in a graph, and employs recursive spectral clustering to compute the functional modules. The computed clusters are annotated using their protein memberships into known multi-protein complexes in the yeast. We also dissect the protein interaction network into a global subnetwork of hub proteins (connected to several clusters), and a local network consisting of cluster proteins.
Research supported by NSF grant CCR0306334, by subcontract B542604 from the Lawrence Livermore National Laboratory, and by a grant from the Office of Research at Old Dominion University.
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Ramadan, E., Osgood, C., Pothen, A. (2005). The Architecture of a Proteomic Network in the Yeast. In: R. Berthold, M., Glen, R.C., Diederichs, K., Kohlbacher, O., Fischer, I. (eds) Computational Life Sciences. CompLife 2005. Lecture Notes in Computer Science(), vol 3695. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11560500_24
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DOI: https://doi.org/10.1007/11560500_24
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