Fig. 1.

This diagram shows the process of creating a transcription factor-to-all other genes GRN using the iRF-subLOOP algorithm. The overall algorithm contains two types of iRF runs. The first run type (a) creates a TF-to-NonTF network by partitioning the expression matrix into TF and NonTF parts. The TFs are then used as the features predicting each of the individual genes in the NonTF matrix. The second run type (b) creates a TF-to-TF network, similar to iRF-LOOP but instead of all genes being used as the input features, only the TFs are used. The resulting networks from (a) and (b) are merged to create a TF-to-All GRN.