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. 2015 May 8;43(Web Server issue):W160–W168. doi: 10.1093/nar/gkv455

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© The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 5. — Effect of different orthology detection methods on phylogenetic profiling. (A) Hamming distance between human Stim1 (query protein) and Orai1 (phylogenetic neighbor) when using different orthology methods and parameters. The strongest functional association (lower HD and HD Percentile) can be predicted using OrthoMCL (≥0% match length, inflation index 1.1). (B) Number of phylogenetic neighbor proteins predicted to co-evolve with the calcium uptake phenotype (HD = 0) based on different orthology detection methods. The presence of known components of the mitochondrial calcium uptake channel is shown.