Table 3.

Pathway-based analysis using occupational exposure interactions for established/suspected occupational lung carcinogens

Pathway namePathway databasePathway analysis methodPAdjusted P valueSignificant genes or genomic regions/all genes
Asbestos
 ChrysoliteWNT pathwayBiocartaIGSEA<0.0010.03511/21
NFKB pathwayREACTOMEKGG0.000086/11
Metals
 Arsenic and compoundsFC epsilon receptor signaling pathwayKEGGIGSEA<0.0010.0228/69
Gap junctionKEGGIGSEA<0.0010.0435/81
 Chromate and compoundsERK1–ERK2/MAPK pathwaySTKEKGG0.0075/32
STKEIGSEA0.020.2310/25
B-cell antigen receptorSTKEKGG0.000711/40
P53 signaling pathwayKEGGIGSEA<0.0010.0123/60
WNT signaling pathwaySuperarrayIGSEA<0.0010.0225/55
Stress pathway (TNF)BiocartaIGSEA0.0010.0410/23
 Chromium and compoundsERK1–ERK2 pathwaySTKEIGSEA0.0060.2411/25
BiocartaKGG0.00098/28
Phase II conjugationREACTOMEKGG0.000210/70
 Nickel and compoundsNFKB pathwayReactomeKGG0.00036/23
Purine metabolismKEGGIGSEA0.0030.1445/130
KEGGKGG0.00225/159
Hedgehog signaling pathwayKEGGIGSEA0.0050.1420/53
KEGGKGG0.0512/56
DNA polymeraseKEGGIGSEA0.0040.068/23
 Diesel engine emissionsXenobiotic metabolism by C450KEGGIGSEA<0.0010.0626/61
KEGGKGG0.0614/70
Glutathione metabolismKEGGIGSEA<0.0010.0111/30
KEGGKGG0.001515/50
Organic dust
 Animal feedRegulation of apoptosisGO:0043065INRICH0.0020.0232
 Live animalsSnare interactions in transportKEGGIGSEA<0.0010.0613/29
ReactomeKGG0.017/38
Silica
 Brick dustPurine metabolismKEGGINRICH0.00020.034
KEGGKGG0.0225/159
ERBB2–ERBB3 pathwayPIDKGG0.000049/55
TNFR1 pathwayBiocartaKGG0.000211/29
 Cement dustTNFR1 pathwayBiocartaIGSEA0.0060.111/28
BiocartaKGG0.000210/29
FAS pathwayBiocartaIGSEA0.0040.0811/27
BiocartaKGG0.000210/30
 Concrete dustDNA polymerase–DNA replicationKEGGIGSEA<0.0010.0668/23
 SandBasal transcription factorsKEGGIGSEA0.0010.04610/25

Abbreviations: KGG, knowledge-based mining system for genome-wide genetic studies; PID, pathway interaction database; STKE, signal transduction knowledge environment.