Table 2 Precision and recall pruning of a time-inferred network using TF–target validation

From: Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions

Validated network measures

Value

Area under precision recall (validated network)

0.2372

Area under precision recall (random network average)

0.1948

Validated AUPR p value (permutation test)

<0.001

Precision threshold for network pruning

0.32

Edge score threshold for pruned network

0.88242

Number of edges (pruned/total)

6836/211,410

Number of TFs (pruned/total)

145/145

Number of targets (pruned/total)

311/1458

  1. TF transcription factor, AUPR area under precision recall
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