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Table 6 Functional pathways of genes most affected by LPS stimulation, determined by using the Genomatix Pathway System (GePS)

From: Differential response of bovine mammary epithelial cells to Staphylococcus aureus or Escherichia coli agonists of the innate immune system

LPS vs Ref 3 h (List of 147 genes taken into account)   
  p value nb of genes*
Signal transduction pathways (canonical)   
Fas signaling pathway 7.58 × 10-6 5/20
Signal transduction pathways (Genomatix) p value nb of genes
NF kappa B 1.52 × 10-12 41/1542
Signal transducer and activator of transcription 1.76 × 10-12 36/1184
Toll like receptor 2.49 × 10-12 26/593
Apoptosis 7.27 × 10-12 52/2592
Tumor protein p53 8.23 × 10-12 34/1108
Interleukin 1 2.05 × 10-11 27/706
Janus kinase 2.57 × 10-11 26/657
Tumor necrosis factor 5.10 × 10-11 34/1182
Interleukin 6 5.57 × 10-11 26/680
Inflammatory 8.31 × 10-11 33/1133
Nuclotide oligodimerization domain/ 9.52 × 10-11 13/131
Caspase recruitment protein family   
Molecular functions (GO)   
Cytokine receptor binding 2.29 × 10-9 12/187
Receptor binding 9.83 × 10-9 23/917
Cytokine activity 5.22 × 10-8 11/199
Chemokine activity 4.88 × 10-7 6/47
Chemokine receptor binding 9.02 × 10-7 6/52
Biological processes (GO)   
Immune system process 2.27 × 10-11 28/1094
Immune response 2.98 × 10-10 22/736
Locomotion 2.72 × 10-9 19/605
Multi-organism process 8.37 × 10-9 21/800
Response to chemical stimulus 1.67 × 10-8 28/1461
LPS vs Ref 6 h (List of 193 genes taken into account)   
Signal transduction pathways (Genomatix)   
Signal transducer and activation 8.41 × 10-17 44/1184
NF-kB 2.66 × 10-16 49/1542
Chemokine (CC motif) ligand 2 8.63 × 10-16 23/272
Interleukin 6 1.91 × 10-15 33/680
Toll like receptor 2.39 × 10-15 31/593
Immune 4.25 × 10-15 38/957
Inflammatory 4.85 × 10-15 41/1133
Tumor necrosis factor 2.14 × 10-14 41/1182
Interleukin 1 2.87 × 10-13 31/706
Janus kinase 2.89 × 10-13 30/657
Molecular functions (GO)   
Cytokine activity 1.21 × 10-10 14/199
Receptor binding 3.74 × 10-9 25/917
Cytokine receptor binding 7.90 × 10-9 12/187
Protein binding 5.75 × 10-6 80/8067
Biological processes (GO)   
Immune response 1.59 × 10-14 29/736
Immune system process 3.15 × 10-13 33/1094
Response to stress 1.53 × 10-12 42/1880
Defense response 2.45 × 10-12 26/708
Response to stimulus 2.98 × 10-11 58/3713
  1. * Nb of genes: number of genes in the list/number of genes in the pathway.