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Open Access Research article

The origins of the evolutionary signal used to predict protein-protein interactions

Lakshmipuram S Swapna1, Narayanaswamy Srinivasan1, David L Robertson2 and Simon C Lovell2*

Author Affiliations

1 Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India

2 Computational and Evolutionary Biology, Faculty of Life Sciences, University of Manchester, Manchester M13 9PT, UK

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BMC Evolutionary Biology 2012, 12:238  doi:10.1186/1471-2148-12-238

Published: 6 December 2012

Additional files

Additional file 1:

Figure S1. Comparison of the orthologs present in the three datasets SP-50L, UP-50L and UP-70L. Figure S2. Branch support values for the various data sets. Figure S3. Correlation of genetic distance matrices. This figure shows the box-plot distribution of A. Z-scores and B Spearman’s rank correlation coefficient for the genetic distance matrices of a pair of proteins for the different datasets. Figure S4. ROC analysis for different datasets. Figure S5. Comparison of maximum log-likelihood (LL) values of the common pairs of proteins in the three different datasets (SP-50L, UP-50L, UP-70L) for a) interacting proteins (b) non-interacting proteins. Figure S6. Distribution of “difference in log-likelihood values” (dLL) for three datasets of a) interacting and b) non-interacting protein pairs. Table S1. Comparison of Pfam domain assignments of orthologs fro the three datasets (SP-50L, UP-50L and UP-70L). Table S2. AUC data for different datasets. Table S3. Chi-square test results for all variant datasets.

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