The DOI matches its Crossref record; 75 of the 75 references it cites were found in a registry or an index.
Topological network alignment uncovers biological function and phylogeny
Open accessAbstract
Sequence comparison and alignment has had an enormous impact on our understanding of evolution, biology and disease. Comparison and alignment of biological networks will probably have a similar impact. Existing network alignments use information external to the networks, such as sequence, because no good algorithm for purely topological alignment has yet been devised. In this paper, we present a novel algorithm based solely on network topology, that can be used to align any two networks. We apply it to biological networks to produce by far the most complete topological alignments of biological networks to date. We demonstrate that both species phylogeny and detailed biological function of individual proteins can be extracted from our alignments. Topology-based alignments have the potential to provide a completely new, independent source of phylogenetic information. Our alignment of the protein–protein interaction networks of two very different species—yeast and human—indicate that even distant species share a surprising amount of network topology, suggesting broad similarities in internal cellular wiring across all life on Earth.
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Cites
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Functional organization of the yeast proteome by systematic analysis of protein complexes
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Cited by
Gaiteri, C., Chen, M., Szymanski, B., Kuzmin, K., Xie, J., Lee, C., Blanche, T., Chaibub Neto, E., Huang, S.-C., Grabowski, T., et al. (2015) · Scientific Reports · doi:10.1038/srep16361 · Cited by 76
Systems biology perspectives on minimal and simpler cells
Xavier, J. C., Patil, K. R., & Rocha, I. (2014) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00050-13 · Cited by 58
Higher-order molecular organization as a source of biological function
Gaudelet, T., Malod-Dognin, N., & Pržulj, N. (2018) · Bioinformatics · doi:10.1093/bioinformatics/bty570 · Cited by 46
Self-citationGirisha, M. N., Badiger, V. P., & Pattar, S. (2022) · Network Modeling Analysis in Health Informatics and Bioinformatics · doi:10.1007/s13721-022-00353-7 · Cited by 4
Metadata
- Authors
- Kuchaiev, O., Milenković, T., Memišević, V., Hayes, W., & Pržulj, N.
- Venue
- Journal of The Royal Society Interface
- Publisher
- The Royal Society
- Published
- 2010-03-24
- Volume
- 7
- Issue
- 50
- Pages
- 1341-1354
- ISSN
- 1742-5662 (ISSN-L)
- 1742-5689
- OpenAlex
- W2130237248
- Cited by
- 355
- References
- 75
- FWCI
- 9.33
- Type
- journal article
- Language
- en
- Open access
- green
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- Kuchaiev, O., Milenković, T., Memišević, V., Hayes, W., & Pržulj, N. (2010). Topological network alignment uncovers biological function and phylogeny. Journal of The Royal Society Interface. https://doi.org/10.1098/rsif.2010.0063
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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