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Open Access Highly Accessed Research article

Biological interaction networks are conserved at the module level

Guy E Zinman1, Shan Zhong1 and Ziv Bar-Joseph12*

  • * Corresponding author: Ziv Bar-Joseph zivbj@cs.cmu.edu

  • † Equal contributors

Author Affiliations

1 Lane Center for Computational Biology, School of Computer Science, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA

2 Machine Learning Department, School of Computer Science, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA

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BMC Systems Biology 2011, 5:134  doi:10.1186/1752-0509-5-134

Published: 23 August 2011

Additional files

Additional file 1:

Supplementary information. This contains supplementary methods, results, references and figures (S1-S5) that are not included in the main text.

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Additional file 2:

Supplementary Table S1. Number of nodes and edges in each network.

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Additional file 3:

Supplementary Table S2. Conservation of the GO Molecular Function terms in S. cerevisiae and S. pombe.

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Additional file 4:

Supplementary Table S3. List of modules in all four species.

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Additional file 5:

Supplementary Table S4. Overlap of modules with specific functional categories.

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Additional file 6:

Supplementary Table S5. Overlap of modules with protein complexes in S. cerevisiae.

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Additional file 7:

Supplementary Table S6. Within-module edge conservation and extended conservation details for real and random modules.

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Additional file 8:

Supplementary Table S7. Within-module edge conservation and extended conservation details for modules defined based on SPICi.

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Additional file 9:

Supplementary Table S8. Within-module edge conservation and extended conservation details for modules defined based on GO biological process.

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Additional file 10:

Supplementary Table S9. Robustness of results to different S. cerevisiae coverage settings.

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Additional file 11:

Supplementary Table S10. Conservation results for many-to-many orthology mappings.

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Additional file 12:

Supplementary Table S11. Conservation between S. cerevisiae and S. pombe under various orthology mappings.

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Additional file 13:

Supplementary Table S12. Matching modules between species.

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