Fig 3. Construction of ML-hGRN for lignocellulosic pathway with a compendium microarray data set (128 chips) from Arabidopsis thaliana roots under salt stress condition.

A. The four-layered hGRN constructed with the BWERF algorithm. B. The four-layered hGRN built from GENIE3. The input files for BWERF and GENIE3 included the expression profiles of 1602 transcription factors and 22 lignocellulosic pathway genes (green nodes at bottom layers). The nodes with red color highlighted in both networks are known regulatory TFs regulating lignocellulosic pathway in existing knowledgebase. The data, edge list as well as gene IDs represented by each symbol can be found in S2 File.