Te Pas et alAdditional File 3

Detailed graphical representation of the main pathway results

Explanation to read the Figures

1. Circles – denote genes with data on the microarray2. Boxes – indicate regulated processes / other pathways3. Colour code• No colour: no up or down regulation• Green: up regulation• Red: down regulation• Blue: probably regulated, direction uncertain

Experiments Content

Exp 1 Line A: infected versus control

Exp 2 Line B: infected versus control

Exp 3 Line A versus Line B: control

Exp 4 Line A versus Line B: infected

Adherens junctionLine differences reaction to Salmonella

Exp 1: line A Exp 2: line B

Adherens junctionLine differences control / infected

Exp 3: control Exp 4: infected

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

Androgen and Estrogen metabolism

Line differences control / infectedExp 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 SalmonellaExp 1: line A Exp 2: line B

Benzoate degradation via CoA ligation

Line differences control / infectedExp 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 SalmonellaExp 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 SalmonellaExp 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 SalmonellaExp 1: line A Exp 2: line B

Complement and Coagulation cascades

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

Cytokine-cytokine receptor interaction

Line differences reaction to SalmonellaExp 1: line A Exp 2: line B

Cytokine-cytokine receptor interaction

Line differences control / infectedExp 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 SalmonellaExp 1: line A Exp 2: line B

Leukocyte transendothelial migration

Line differences control / infectedExp 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 SalmonellaExp 1: line A Exp 2: line B

Metabolism of Xenobiotics by cytochrome P450

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

Natural killer cell mediated cytotoxicity

Line differences reaction to SalmonellaExp 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 SalmonellaExp 1: line A Exp 2: line B

Pantothenate and CoA biosynthesis

Line differences control / infectedExp 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 SalmonellaExp 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 SalmonellaExp 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