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Part III: - Graphs and Networks

Published online by Cambridge University Press:  19 August 2022

Benny Chor
Affiliation:
Tel-Aviv University
Amir Rubinstein
Affiliation:
Tel-Aviv University
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Summary

A graph is defined by two sets. One set, the nodes, describes a collection of objects, for example biological species, such as human, whale, mountain lion, crow, pigeon, sea gull, Arabian surgeonfish, zebra fish, and Anemonefish. The second set, the edges, comprises pairs of nodes, such as {human, mountain lion}, {pigeon, sea gull}, {Arabian surgeonfish, Anemonefish}. Each pair represents a connection between objects, which has some meaning. For example, two species are related to one another if they belong to the same taxonomic family, or they both live on the same continent, or they are active in the same part of the day, and so on. Each such feature will create a different graph, because different properties create different sets of pairs (edges).

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Chapter
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Publisher: Cambridge University Press
Print publication year: 2022

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References

Reference

Barabási, Albert-László, and Albert, Réka. “Emergence of scaling in random networks.” Science 286.5439 (1999): 509512.Google Scholar

Further Reading

Joy, MP, Brock, A, Ingber, DE, Huang, S. “High-betweenness proteins in the yeast protein interaction network.” J Biomed Biotechnol. 2005.2 (2005): 96103. doi:10.1155/JBB.2005.96.CrossRefGoogle ScholarPubMed
Ma’ayan, A, Jenkins, SL, Neves, S, et al.Formation of regulatory patterns during signal propagation in a Mammalian cellular network.” Science. 309.5737 (2005): 10781083. doi:10.1126/science.1108876.CrossRefGoogle Scholar

References and Further Reading

Li, Fangting, et al.The yeast cell-cycle network is robustly designed.” Proceedings of the National Academy of Sciences 101.14 (2004): 47814786.CrossRefGoogle ScholarPubMed
Rubinstein, Amir, et al.Faithful modeling of transient expression and its application to elucidating negative feedback regulation.” Proceedings of the National Academy of Sciences, 104.15 (2007): 62416246.CrossRefGoogle ScholarPubMed

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  • Graphs and Networks
  • Benny Chor, Tel-Aviv University, Amir Rubinstein, Tel-Aviv University
  • Book: Computational Thinking for Life Scientists
  • Online publication: 19 August 2022
  • Chapter DOI: https://doi.org/10.1017/9781108178327.008
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  • Graphs and Networks
  • Benny Chor, Tel-Aviv University, Amir Rubinstein, Tel-Aviv University
  • Book: Computational Thinking for Life Scientists
  • Online publication: 19 August 2022
  • Chapter DOI: https://doi.org/10.1017/9781108178327.008
Available formats
×

Save book to Google Drive

To save content items to your account, please confirm that you agree to abide by our usage policies. If this is the first time you use this feature, you will be asked to authorise Cambridge Core to connect with your account. Find out more about saving content to Google Drive.

  • Graphs and Networks
  • Benny Chor, Tel-Aviv University, Amir Rubinstein, Tel-Aviv University
  • Book: Computational Thinking for Life Scientists
  • Online publication: 19 August 2022
  • Chapter DOI: https://doi.org/10.1017/9781108178327.008
Available formats
×