Te Pas et al Additional File 3 Detailed graphical representation of the main pathway results

Explanation to read the Figures 1.Circles – denote genes with data on the microarray 2.Boxes – indicate regulated processes / other pathways 3.Colour code No colour: no up or down regulation Green: up regulation Red: down regulation Blue: probably regulated, direction uncertain ExperimentsContent Exp 1Line A: infected versus control Exp 2Line B: infected versus control Exp 3Line A versus Line B: control Exp 4Line A versus Line B: infected

Adherens junction Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Adherens junction Line differences control / infected Exp 3: control Exp 4: infected

Adipocytokine signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Adipocytokine signaling Line differences control / infected Exp 3: control Exp 4: infected

Aminosugars metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Aminosugars metabolism Line differences control / infected Exp 3: control Exp 4: infected

Androgen and Estrogen metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Androgen and Estrogen metabolism Line differences control / infected Exp 3: control Exp 4: infected

Apoptosis Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Apoptosis Line differences control / infected Exp 3: control Exp 4: infected

Beta-Alanine metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Beta-Alanine metabolism Line differences control / infected Exp 3: control Exp 4: infected

Arachidonic acid metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Arachidonic acid metabolism Line differences control / infected Exp 3: control Exp 4: infected

Axon guidance Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Axon guidance Line differences control / infected Exp 3: control Exp 4: infected

B cell receptor signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

B cell receptor signaling Line differences control / infected Exp 3: control Exp 4: infected

Benzoate degradation via CoA ligation Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Benzoate degradation via CoA ligation Line differences control / infected Exp 3: control Exp 4: infected

Bile acid biosynthesis Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Bile acid biosynthesis Line differences control / infected Exp 3: control Exp 4: infected

Caprolactam degradation Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Caprolactam degradation Line differences control / infected Exp 3: control Exp 4: infected

Cell adhesion molecules Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Cell adhesion molecules Line differences control / infected Exp 3: control Exp 4: infected

Cell communication / Cell junction Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Cell communication / Cell junction Line differences control / infected Exp 3: control Exp 4: infected

Circadian rhythm Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Circadian rhythm Line differences control / infected Exp 3: control Exp 4: infected

Complement and Coagulation cascades Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Complement and Coagulation cascades Line differences control / infected Exp 3: control Exp 4: infected

Cytokine-cytokine receptor interaction Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Cytokine-cytokine receptor interaction Line differences control / infected Exp 3: control Exp 4: infected

Dorso-ventral axis formation Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Dorso-ventral axis formation Line differences control / infected Exp 3: control Exp 4: infected

Fatty acid metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Fatty acid metabolism Line differences control / infected Exp 3: control Exp 4: infected

Focal adhesion Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Focal adhesion Line differences control / infected Exp 3: control Exp 4: infected

Gap junction Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Gap junction Line differences control / infected Exp 3: control Exp 4: infected

Glutatione metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Glutatione metabolism Line differences control / infected Exp 3: control Exp 4: infected

Glycerolipid metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Glycerolipid metabolism Line differences control / infected Exp 3: control Exp 4: infected

Gly, Ser, Thr metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Gly, Ser, Thr metabolism Line differences control / infected Exp 3: control Exp 4: infected

Insulin signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Insulin signaling Line differences control / infected Exp 3: control Exp 4: infected

JAK-STAT signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

JAK-STAT signaling Line differences control / infected Exp 3: control Exp 4: infected

Leukocyte transendothelial migration Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Leukocyte transendothelial migration Line differences control / infected Exp 3: control Exp 4: infected

Long-term depression Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Long-term depression Line differences control / infected Exp 3: control Exp 4: infected

Long-term potentiation Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Long-term potentiation Line differences control / infected Exp 3: control Exp 4: infected

MAPK signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

MAPK signaling Line differences control / infected Exp 3: control Exp 4: infected

Metabolism of Xenobiotics by cytochrome P450 Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Metabolism of Xenobiotics by cytochrome P450 Line differences control / infected Exp 3: control Exp 4: infected

Natural killer cell mediated cytotoxicity Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Natural killer cell mediated cytotoxicity Line differences control / infected Exp 3: control Exp 4: infected

N-glycan biosynthesis Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

N-glycan biosynthesis Line differences control / infected Exp 3: control Exp 4: infected

Pantothenate and CoA biosynthesis Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Pantothenate and CoA biosynthesis Line differences control / infected Exp 3: control Exp 4: infected

Pentose phosphate pathway Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Pentose phosphate pathway Line differences control / infected Exp 3: control Exp 4: infected

Proteasome Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Proteasome Line differences control / infected Exp 3: control Exp 4: infected

Purine metabolism Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Purine metabolism Line differences control / infected Exp 3: control Exp 4: infected

Regulation of actin cytoskeleton Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Regulation of actin cytoskeleton Line differences control / infected Exp 3: control Exp 4: infected

T cell receptor signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

T cell receptor signaling Line differences control / infected Exp 3: control Exp 4: infected

TGF-beta signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

TGF-beta signaling Line differences control / infected Exp 3: control Exp 4: infected

Tight junction Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Tight junction Line differences control / infected Exp 3: control Exp 4: infected

Val, Leu and Ile degradation Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

Val, Leu and Ile degradation Line differences control / infected Exp 3: control Exp 4: infected

WNT signaling Line differences reaction to Salmonella Exp 1: line A Exp 2: line B

WNT signaling Line differences control / infected Exp 3: control Exp 4: infected