Table 2. Pathway enrichment Summary of the pathways that were significantly enriched (p<0.05) in each meta-pathway associated with HNSCC.

PathwayDatabase	Tumor Meta-pathway	HPV-Positive Meta-pathway	HPV-Negative Meta-pathway
KEGG	ERBB signaling pathway, Hedgehog signalingpathway, Adherens junction, Epithelial cellsignaling in H. pylori infection, PathogenicE. coli infection, Endometrial cancer,Basal cell carcinoma	Glycolysis and gluconeogensis, Arginine and proline metabolism, Glutathione metabolism, ERBB signaling pathway, GNRH signaling pathway, Focal adhesion, Adherens junction, Prion diseases, Leishmania infection, Endometrial cancer	ERBB signaling pathway, WNT signaling pathway, Hedgehog signaling pathway, Axon guidance, Adherens junction, Pathogenic E. coli infection, Pathways in cancer, Endometrial cancer, Prostate cancer, Thyroid cancer, Basal cell carcinoma
Biocarta Pathways	P35 Alzheimers, Gleevec, Keratinocyte, PYK2,MAPK, NGF, Cardiac EGF	Biopeptides, EGF, EPO, ERK, P53 Hypoxia,IGF1, GSK3, Insulin, NGF, GPCR, Toll	AT1R, CDMAC, P35 Alzheimers, RACCYCD, Gleevec, Integrin, Keratinocyte, PYK2, MAPK, ETS, Cardiac EGF, WNT
Reactome	NCAM signaling for neurite out growth, SLCmediated transmembrane transport,transmembrane transport of small molecules	Basigin interactions, Diabetes pathways,Gluconeogenesis, Glucose metabolism,Metabolism of carbohydrates, NF KB isactivated and signals survival, P75 NTRreceptor mediated signaling, P75NTR signalsvia NFKB, Regulation of Insulin like growthfactor activity by insulin like growth factorbinding proteins, Toll receptor cascades	Axon guidance, Clathrin derived vesicle budding, Membrane trafficking, Amino acids, Toll like receptor 3 cascade