Chapter title |
Global alignment of protein-protein interaction networks.
|
---|---|
Chapter number | 3 |
Book title |
Data Mining for Systems Biology
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Published in |
Methods in molecular biology, December 2012
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DOI | 10.1007/978-1-62703-107-3_3 |
Pubmed ID | |
Book ISBNs |
978-1-62703-106-6, 978-1-62703-107-3
|
Authors |
Mongiovì M, Sharan R, Misael Mongiovì, Roded Sharan, Mongiovì, Misael, Sharan, Roded |
Abstract |
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 networks to improve the detection of orthologous proteins across species. In particular, we focus on pairwise global network alignment methods that aim to find a mapping between the networks of two species that maximizes the sequence and interaction similarities between matched nodes. We further suggest a novel evolutionary-based global alignment algorithm. We then compare the different methods on a yeast-fly-worm benchmark, discuss their performance differences, and conclude with open directions for future research. |
X Demographics
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Unknown | 2 | 100% |
Demographic breakdown
Type | Count | As % |
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Members of the public | 2 | 100% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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United States | 1 | 13% |
Unknown | 7 | 88% |
Demographic breakdown
Readers by professional status | Count | As % |
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Researcher | 3 | 38% |
Student > Ph. D. Student | 2 | 25% |
Other | 2 | 25% |
Professor > Associate Professor | 1 | 13% |
Readers by discipline | Count | As % |
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Agricultural and Biological Sciences | 3 | 38% |
Biochemistry, Genetics and Molecular Biology | 2 | 25% |
Mathematics | 1 | 13% |
Computer Science | 1 | 13% |
Engineering | 1 | 13% |
Other | 0 | 0% |