Figure 7.

Confidence Intervals (95% CIs) of the median bait-prey semantic similarity for SAINT-only and SAINT in conjunction with ROCS at the different ROCS procedural stages “N” (SAINT-only), “R”, and “S” (ROCS-SAINT) in the CTNNBIP1 (top) and STK24 (bottom) AP-MS bait experiments. Note especially the increase in median bait-prey semantic similarity between the naïve stage “N” (SAINT-only) and final stage “S” (ROCS-SAINT). The pairwise Resnik semantic similarity measure <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/128/mathml/M251','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/128/mathml/M251">View MathML</a> is given between a Gene Ontology (GO) term from the bait protein (denoted cB) and for each Specific Prey Protein (denoted cP) as described in the methods section for all Gene Ontologies (Biological Process (BP), Molecular Function (MF), and Cellular Component (CC)) - see also Additional file 6: Table S4. Results are reported here for a conservative coefficient of <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/128/mathml/M252','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/128/mathml/M252">View MathML</a> for the 95% CI of the median since group sample sizes and group standard deviations were not similar (see Methods section), and for <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/128/mathml/M253','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/128/mathml/M253">View MathML</a> and the marginal inclusion probability thresholds <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/128/mathml/M254','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/128/mathml/M254">View MathML</a> and <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/128/mathml/M255','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/128/mathml/M255">View MathML</a> as determined in each AP-MS experiment (see Tables 2 and 3).

Dazard et al. BMC Bioinformatics 2012 13:128   doi:10.1186/1471-2105-13-128
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