Table 2.

Pathways and a priori defined sets of genes that show statistically significant, concordant differences between each gastric cancer subtype and normal stomach (using Gene Set analysis, GSA with FDR= 0.25).

Significant pathways between “Proximal non-diffuse” vs Normal Stomach
Upregulated in “Proximal non-diffuse”	Downregulated in “Proximal non-diffuse”
Bile acid biosynthesis HSA00624_1_AND_2_METHYLNAPHTHALENE_DEGRADATION HSA00641_3_CHLOROACRYLIC_ACID_DEGRADATION TYROSINE_METABOLISM GLUCONEOGENESIS GLYCEROLIPID_METABOL GLYCOLYSIS HSA00561_GLYCEROLIPID_METABOLISM HSA00980_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450 HSA00010_GLYCOLYSIS__AND_GLUCONEOGENESIS	HSA05222_SMALL_CELL_lung cancer
Molecular Functions
ATPASE_ACTIVITY__COU HYDROLASE_ACTIVITY PRIMARY_ACTIVE_TRANS ACTIVE_TRANSMEMBRANE HORMONE_ACTIVITY	METALLOENDOPEPTIDASE_ACTIVITY” RNA_DEPENDENT_ATPASE_ACTIVITY ATP_DEPENDENT_RNA__HELICASE_ACTIVITY
Significant pathways differentiate “Diffuse” vs Normal Stomach
Upregulated in “Diffuse”	Downregulated in “Diffuse”
	HSA04512_ECM_RECEPTOR_INTERACTION HSA05222_SMALL_CELL_lung cancer
Significant pathways that differentiate “Distal non-diffuse” vs Normal Stomach
Upregulated in “Distal non-diffuse”	Downregulated in “Distal non-diffuse”
GLYCEROLIPID_METABOLISM HSA00010_GLYCOLYSIS__AND_GLUCONEOGENESIS HSA00624_1_AND_2_METHYLNAPHTHALENE_DEGRADATION BILE_ACID_BIOSYNTHES”IS GLUCONEOGENESIS GLYCOLYSIS PROPANOATE_METABOLISM TYROSINE_METABOLISM VALINE_LEUCINE_AND_ISOLEUCINE_DEGRADATION HSA00280_VALINE_LEUCINE_AND_ISOLEUCINE_DEGRADATION HSA00640_PROPANOATE__METABOLISM HSA00641_3_CHLOROACRYLIC_ACID_DEGRADATION	HSA05222_SMALL_CELL_
Biologic Processes
COVALENT_CHROMATIN_MODIFICATION HISTONE_MODIFICATION	REGULATION_OF_DNA_REPLICATION REGULATION_OF_MITOTIC_CELL_CYCLE
Molecular Functions
ATPASE_ACTIVITY__COUPLED_TO_MOVEMENT_OF_SUBSTANCES HYDROLASE_ACTIVITYACTING_ON_ACID_ANHYDRIDES__CATALYZING_TR ANSMEMBRANE_MOVEMENT_OF_SUBSTANCES PRIMARY_ACTIVE_TRANSMEMBRANE_TRANSPORTER_ACTIVITY ATPASE_ACTIVITY__COULED_TO_TRANSMEMBRANE_MOVEMENT_OF_IONS COENZYME_BINDING STEROID_BINDING LIPID_BINDING