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Table 1 Pairwise comparisons between context-specific cell cycle phase networks from hierarchical SupirFactor. Network edges are classified into cell cycle phase context based on the existing annotation of the target gene. ERV of the network edges (where \(\xi ^{2} > 0.01\) in one or more contexts) is then compared as a contingency table. Network edge counts in gray columns are edges where ERV is higher in the correct context-specific network, based on existing annotations. The total column counts network edges (where \(\xi ^{2} > 0\) for that context) for the context-specific network and does not total the columns of the contingency table. Odds ratio (OR) and p-values are calculated by one-sided fisher exact test, using the contingency table

From: Structure-primed embedding on the transcription factor manifold enables transparent model architectures for gene regulatory network and latent activity inference