Pathway-Based Kernel Boosting for the Analysis of Genome-Wide Association Studies
Table 4
KEGG pathways in the human diseases class as downloaded in April 2016. Pathways are sorted according to value, derived from LKMT application on the rheumatoid arthritis dataset, in ascending order. values for pathways significantly associated after Bonferroni correction are listed. Pathways selected by kernel boosting on the same dataset are marked in italics. Pathways containing one or several genes belonging to the HLA complex are marked with an asterisk behind the id number.
KEGG id
Name of pathway
value
hsa05133
Pertussis
hsa05150
Staphylococcus aureus infection
hsa04933
AGE-RAGE signaling pathway in diabetic complications
hsa05169
Epstein-Barr virus infection
hsa05144
Malaria
hsa05206
MicroRNAs in cancer
hsa05330
Allograft rejection
hsa05200
Pathways in cancer
hsa05166
HTLV-I infection
hsa05030
Cocaine addiction
hsa05323
Rheumatoid arthritis
hsa05310
Asthma
hsa05134
Legionellosis
hsa04940
Type I diabetes mellitus
hsa05031
Amphetamine addiction
hsa05145
Toxoplasmosis
hsa05203
Viral carcinogenesis
hsa05332
Graft-versus-host disease
hsa05020
Prion diseases
hsa05143
African trypanosomiasis
hsa05222
Small-cell lung cancer
hsa05205
Proteoglycans in cancer
hsa05322
Systemic lupus erythematosus
hsa05161
Hepatitis B
hsa05410
Hypertrophic cardiomyopathy (HCM)
hsa05010
Alzheimer’s disease
hsa05142
Chagas disease (American trypanosomiasis)
hsa05168
Herpes simplex infection
hsa05012
Parkinson’s disease
hsa04932
Nonalcoholic fatty liver disease (NAFLD)
hsa05321
Inflammatory bowel disease (IBD)
hsa04931
Insulin resistance
hsa05219
Bladder cancer
hsa05215
Prostate cancer
hsa05202
Transcriptional misregulation in cancer
hsa05220
Chronic myeloid leukemia
hsa05146
Amoebiasis
hsa05414
Dilated cardiomyopathy
hsa05231
Choline metabolism in cancer
hsa05032
Morphine addiction
hsa05162
Measles
hsa05214
Glioma
hsa05164
Influenza A
hsa05416
Viral myocarditis
hsa05132
Salmonella infection
hsa05014
Amyotrophic lateral sclerosis (ALS)
hsa04930
Type II diabetes mellitus
Not significant
hsa05218
Melanoma
Not significant
hsa05140
Leishmaniasis
Not significant
hsa05213
Endometrial cancer
Not significant
hsa05211
Renal cell carcinoma
Not significant
hsa05340
Primary immunodeficiency
Not significant
hsa05160
Hepatitis C
Not significant
hsa05212
Pancreatic cancer
Not significant
hsa05016
Huntington’s disease
Not significant
hsa05221
Acute myeloid leukemia
Not significant
hsa04950
Maturity onset diabetes of the young
Not significant
hsa05412
Arrhythmogenic right ventricular cardiomyopathy (ARVC)
Not significant
hsa05223
Non-small-cell lung cancer
Not significant
hsa05034
Alcoholism
Not significant
hsa05130
Pathogenic Escherichia coli infection
Not significant
hsa05120
Epithelial cell signaling in Helicobacter pylori infection
