The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
Assessing experimentally derived interactions in a small world
Open accessAbstract
Experimentally determined networks are susceptible to errors, yet important inferences can still be drawn from them. Many real networks have also been shown to have the small-world network properties of cohesive neighborhoods and short average distances between vertices. Although much analysis has been done on small-world networks, small-world properties have not previously been used to improve our understanding of individual edges in experimentally derived graphs. Here we focus on a small-world network derived from high-throughput (and error-prone) protein–protein interaction experiments. We exploit the neighborhood cohesiveness property of small-world networks to assess confidence for individual protein–protein interactions. By ascertaining how well each protein–protein interaction (edge) fits the pattern of a small-world network, we stratify even those edges with identical experimental evidence. This result promises to improve the quality of inference from protein–protein interaction networks in particular and small-world networks in general.
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Cites
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Barabási, A.-L., & Albert, R. (1999) · Science · doi:10.1126/science.286.5439.509 · Cited by 36,135
A comprehensive analysis of protein–protein interactions in Saccharomyces cerevisiae
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Hierarchical Organization of Modularity in Metabolic Networks
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Classes of small-world networks
Amaral, L. A. N., Scala, A., Barthélémy, M., & Stanley, H. E. (2000) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.200327197 · Cited by 3,051
Cited by
A Human Protein-Protein Interaction Network: A Resource for Annotating the Proteome
Stelzl, U., Worm, U., Lalowski, M., Haenig, C., Brembeck, F. H., Goehler, H., Stroedicke, M., Zenkner, M., Schoenherr, A., Koeppen, S., et al. (2005) · Cell · doi:10.1016/j.cell.2005.08.029 · Cited by 2,387
A Protein Interaction Map of Drosophila melanogaster
Giot, L., Bader, J. S., Brouwer, C., Chaudhuri, A., Kuang, B., Li, Y., Hao, Y. L., Ooi, C. E., Godwin, B., Vitols, E., et al. (2003) · Science · doi:10.1126/science.1090289 · Cited by 1,863
Watts, D. J. (2004) · Annual Review of Sociology · doi:10.1146/annurev.soc.30.020404.104342 · Cited by 1,163
Pathway Commons, a web resource for biological pathway data
Cerami, E. G., Gross, B. E., Demir, E., Rodchenkov, I., Babur, O., Anwar, N., Schultz, N., Bader, G. D., & Sander, C. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkq1039 · Cited by 1,101
Leicht, E. A., Holme, P., & Newman, M. E. J. (2006) · Physical Review E · doi:10.1103/physreve.73.026120 · Cited by 916
Metadata
- Authors
- Goldberg, D. S., & Roth, F. P.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2003-04-03
- Volume
- 100
- Issue
- 8
- Pages
- 4372-4376
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2053906518
- Cited by
- 400
- References
- 4
- FWCI
- 8.36
- Type
- journal article
- Language
- en
- Open access
- green
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