Table 3 Expression changes upon coffee exposure of genes selected using the biclustering algorithm.

From: Use of Microarray Datasets to generate Caco-2-dedicated Networks and to identify Reporter Genes of Specific Pathway Activity

Gene Name Pathway Seed Genes Found from Significant change in expression (Fold Change more than ±1.5)
DNAJB1 Nrf2 Yes WGCNA
SQSTM1 Nrf2 Yes Literature Yes
HMOX1 Nrf2 Yes Literature Yes
ENC1 Nrf2 Yes WGCNA No
Nrf2 Nrf2 Yes Literature No
ABCC1 Nrf2 Yes Literature No
CDC34 Nrf2 No Biclustering
DNAJC4 Nrf2 No Biclustering
GTR Nrf2 No Biclustering
ATF4 Nrf2 No Biclustering Yes
GSTA2 Both No Biclustering Yes
GSTM4 Both No Biclustering Yes
MAPK8 AhR No Biclustering
MED1 AhR No Biclustering
NCOR2 AhR No Biclustering
NFIA AhR No Biclustering No
ARNT AhR Yes WGCNA No
AhR AhR Yes Literature Yes
CYP1A1 AhR Yes Literature Yes
PRKCA AhR Yes WGCNA No
TiPARP AhR Yes Literature Yes
  1. ‘—’ Indicates genes that were not the target of experimental validation. Genes were considered to be responsive if they were differentially expressed in at least two coffee samples.