Global alignment of protein-protein interaction networks by graph matching methods
نویسندگان
چکیده
منابع مشابه
Global alignment of protein–protein interaction networks by graph matching methods
MOTIVATION Aligning protein-protein interaction (PPI) networks of different species has drawn a considerable interest recently. This problem is important to investigate evolutionary conserved pathways or protein complexes across species, and to help in the identification of functional orthologs through the detection of conserved interactions. It is, however, a difficult combinatorial problem, f...
متن کاملGlobal alignment of protein-protein interaction networks.
Sequence-based comparisons have been the workhorse of bioinformatics for the past four decades, furthering our understanding of gene function and evolution. Over the last decade, a plethora of technologies have matured for measuring Protein-protein interactions (PPIs) at large scale, yielding comprehensive PPI networks for over ten species. In this chapter, we review methods for harnessing PPI ...
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UNLABELLED We describe an algorithm for global alignment of multiple protein-protein interaction (PPI) networks, the goal being to maximize the overall match across the input networks. The intuition behind our algorithm is that a protein in one PPI network is a good match for a protein in another network if the former's neighbors are good matches for the latter's neighbors. We encode this intui...
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MOTIVATION The interactions among proteins and the resulting networks of such interactions have a central role in cell biology. Aligning these networks gives us important information, such as conserved complexes and evolutionary relationships. Although there have been several publications on the global alignment of protein networks; however, none of proposed methods are able to produce a highly...
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We describe an algorithm, IsoRank, for global alignment of two protein-protein interaction (PPI) networks. IsoRank aims to maximize the overall match between the two networks; in contrast, much of previous work has focused on the local alignment problem— identifying many possible alignments, each corresponding to a local region of similarity. IsoRank is guided by the intuition that a protein sh...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2009
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btp196