Te Pas et al
Additional File 3
Detailed graphical representation
of the main pathway results
Explanation to read the Figures
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Circles – denote genes with data on the microarray
Boxes – indicate regulated processes / other pathways
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 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