ArticleAlgorithms for molecular biology : AMB2015
A graph modification approach for finding core-periphery structures in protein interaction networks.
Article in Algorithms for molecular biology : AMB, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
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2 citing papers in PubMed.
- Internal control of brain networks via sparse feedback.AIChE journal. American Institute of Chemical Engineers · 2023Article
- Identifying protein complexes based on an edge weight algorithm and core-attachment structure.BMC bioinformatics · 2019Article
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3 authors.
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Abstract
The core-periphery model for protein interaction (PPI) networks assumes that protein complexes in these networks consist of a dense core and a possibly sparse periphery that is adjacent to vertices in the core of the complex. In this work, we aim at uncovering a global core-periphery structure for a given PPI network. We propose two exact graph-theoretic formulations for this task, which aim to fit the input network to a hypothetical ground truth network by a minimum number of edge modifications. In one model each cluster has its own periphery, and in the other the periphery is shared. We first analyze both models from a theoretical point of view, showing their NP-hardness. Then, we devise efficient exact and heuristic algorithms for both models and finally perform an evaluation on subnetworks of the S. cerevisiae PPI network.
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