Table 1: A summary of the KEGG pathway analysis of Alzheimer’s disease susceptibility genes. The number of genes in each pathway is shown in brackets (see http://www.polygenicpathways.co.uk/alzkegg.htm for coloured figures).

Immune system and pathogen defencePathogen entry pathwaysStructural and DNA repair
(and HSV-1 pathways)

Cytokine-cytokine receptor interaction (13)Chagas disease (17)Regulation of actin cytoskeleton (8)
Hematopoietic cell lineage (11)Hepatitis C (13)Endocytosis (8)
Complement and coagulation cascades (11)Malaria (12)Protein processing in endoplasmic reticulum (8)
Natural killer cell-mediated cytotoxicity (10)Amoebiasis (11)Nucleotide excision repair (4)
Chemokine signaling pathway (9)Microbial metabolism in diverse environments (10)Spliceosome (4)
Phagosome (9)Leishmaniasis (9)DNA replication (3)
Lysosome (8)Viral myocarditis (6)Homologous recombination (3)
T cell receptor signaling pathway (8)Staphylococcus aureus infection (6)RNA transport (2)
Toll-like receptor signaling pathway (8)Bacterial invasion of epithelial cells (4)Mismatch repair (2)
NOD-like receptor signaling pathway—(7)Pathogenic Escherichia coli infection (3)Base excision repair (2)
Systemic lupus erythematosus (7)Epithelial cell signaling in Helicobacter pylori infection (2)Apoptosis and oxidative stress
B cell receptor signaling pathway (6)Shigellosis (2)Apoptosis (10)
Graft-versus-host disease (6)MetabolismDrug metabolism cytochrome P450 (6)
Cytosolic DNA-sensing pathway (5)Oxidative phosphorylation (14)Glutathione metabolism (5)
Antigen processing and presentation (5)Arginine and proline metabolism (7)Metabolism of xenobiotics by cytochrome P450 (5)
Intestinal immune network for IgA production (5)Glycolysis/gluconeogenesis (5)Peroxisome (3)
Type I diabetes mellitus (5)Valine, leucine, and isoleucine degradation (4)Drug metabolism—other enzymes (2)
Salivary secretion (5)One carbon pool by folate (3)Signalling pathways
Adipocytokine signaling pathway (5)Terpenoid backbone biosynthesis (3)MAPK signalling (35)
Fc epsilon RI signaling pathway (4)Pyruvate metabolism (3)Calcium signaling pathway (13)
Allograft rejection (4)Citrate cycle (TCA cycle) (3)PPAR signaling pathway (12)
TGF-beta signaling pathway (4)Glycine, serine, and threonine metabolism (3)Neurotrophin signaling pathway (12)
Autoimmune thyroid disease (4)Protein digestion and absorption (3)Wnt signaling pathway (10)
RIG-I-like receptor signaling pathway (4)Tyrosine metabolism (3)Insulin signaling pathway (9)
Jak-STAT signaling pathway (4)Steroid hormone biosynthesis (3)VEGF signaling pathway (7)
Fc gamma R-mediated phagocytosis (3)Steroid biosynthesis (3)Vascular smooth muscle contraction (6)
Leukocyte transendothelial migration (3)Glycerolipid metabolism (3)Notch signaling pathway (5)
Asthma (3)Porphyrin and chlorophyll metabolism (3)ABC transporters (5)
Primary immunodeficiency (2)Histidine metabolism (2)Renin-angiotensin system (4)
Sphingolipid metabolism (2)Cardiac muscle contraction (4)
Cysteine and methionine metabolism (2)mTOR signaling pathway (3)
Purine metabolism (2)ErbB signaling pathway (3)
Tryptophan metabolism (2)Aldosterone-regulated sodium reabsorption (3)
Lysine degradation (2)Progesterone-mediated oocyte maturation (3)
Primary bile acid biosynthesis (2)GnRH signaling pathway (2)
Hedgehog signaling pathway (2)