Fig. 6

Replication. a Consensus network. Black edges represent replicated partial correlations that correspond to direct enzymatic steps in the known IgG glycosylation pathway, green edges represent replicated edges matching the reactions predicted by our approach, and red edges represent replicated correlations corresponding to reactions that were not predicted to take part in IgG glycosylation. Replicated edges were defined as partial correlations that were significant in all four cohorts. Gray edges represent partial correlations that were significant in at least one cohort but not in all four. Note that three of the five replicated but non-predicted edges linked the same glycan structure in different IgG subclasses, which we did not consider in our inference approach. Thus, there are only two edges that are truly non-predicted. b Venn diagram of the significant partial correlations in the four cohorts. In total, 44 edges were shared among all four cohorts. c Contingency table for the partial correlation coefficients that were found to be significant in at least one of the four considered cohorts. The classification variables in this case are replication status and pathway distance. Here, we considered edges that were significant in at least one of the four cohorts, and we considered an edge to be replicated if it occurred in all four cohorts. The resulting P-value was very low, indicating that replicated edges are more likely to represent enzymatic reactions than non-replicated edges