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Table 2 Gene ontology (GO) analysis of the commonly affected genes by CsA in WT-PCLS and FXRKO-PCLS

From: Cyclosporin A induced toxicity in mouse liver slices is only slightly aggravated by Fxr-deficiency and co-occurs with upregulation of pro-inflammatory genes and downregulation of genes involved in mitochondrial functions

  General function GO process FDR
Upregulation ER GO:0005783 ~ endoplasmic reticulum 2.8E-25
ER GO:0044432 ~ endoplasmic reticulum part 4.4E-15
ER GO:0031974 ~ membrane-enclosed lumen 3.0E-11
ER GO:0070013 ~ intracellular organelle lumen 5.6E-10
ER GO:0005788 ~ endoplasmic reticulum lumen 4.4E-09
ER GO:0042175 ~ nuclear envelope-endoplasmic reticulum network 2.5E-08
ER GO:0005789 ~ endoplasmic reticulum membrane 2.9E-07
ER GO:0012505 ~ endomembrane system 6.6E-05
ER stress GO:0006986 ~ response to unfolded protein 2.2E-04
ER stress GO:0034976 ~ response to endoplasmic reticulum stress 2.2E-03
Protein/vesicular transport GO:0045184 ~ establishment of protein localization 8.1E-08
Protein/vesicular transport GO:0015031 ~ protein transport 9.7E-08
Protein/vesicular transport GO:0008104 ~ protein localization 5.0E-07
Protein/vesicular transport GO:0031982 ~ vesicle 1.3E-03
Protein/vesicular transport GO:0016192 ~ vesicle-mediated transport 1.7E-03
Protein/vesicular transport GO:0046907 ~ intracellular transport 2.1E-03
Protein/vesicular transport GO:0016023 ~ cytoplasmic membrane-bounded vesicle 2.1E-03
Protein/vesicular transport GO:0031988 ~ membrane-bounded vesicle 2.5E-03
Protein/vesicular transport GO:0031410 ~ cytoplasmic vesicle 4.0E-03
Downreg. Coagulation GO:0009611 ~ response to wounding 2.4E-06
Coagulation GO:0006956 ~ complement activation 4.1E-06
Coagulation GO:0006958 ~ complement activation, classical pathway 9.8E-04
Lipid metabolism GO:0006644 ~ phospholipid metabolic process 5.0E-04
Lipid metabolism GO:0016042 ~ lipid catabolic process 8.6E-04
Lipid metabolism GO:0006631 ~ fatty acid metabolic process 9.6E-04
Lipid metabolism GO:0006775 ~ fat-soluble vitamin metabolic process 2.5E-03
Protein processing GO:0051605 ~ protein maturation by peptide bond cleavage 1.8E-05
Protein processing GO:0051604 ~ protein maturation 1.5E-04
  1. GO analysis of the significant genes (FDR ≤ 0.05) regulated by Cyclosporin A in WT-PCLS and FXRKO-PCLS. GO analysis was performed in DAVID and GO process was considered as significant if FDR ≤ 0.005. In addition, the individual GO processes were grouped according to their general function and these groups are depicted in column denoted as “General function”