Table 3. Significantly differentially altered genes across all analyses.

	Typical responders		Exceptional responders
Copy number	VSTM2A LOC285878 OR4M2 OR4N4		CDKN2A-AS1 CDKN2A
Methylation	SLC15A3 TTC12 LRRC8E SUSD3 LRRC61
Gene expression	CXCL8 CCL20		ETNPPL SH3GL2
GSEA	LAG3 SFTPD INHBA TRIB2 KLF4 NMI NFKB1 INHBB IL6 RNF128 BCL3		NLGN1 STXBP1 DNM1 PINK1 SYNJ1 CDK5 SCAMP5 CACNA1I SYT1 KCNB1 PLCB1 CDK5R2 NOS1 CPM6B TOR1A CAMK2A		CACNA1A RIMS1 KCNMB4 SNCG MEF2C SNCAIP SYT11 ACCN2 NF1 RAB3A RIMS3 SNCA SYN1 RAB5A RAB3GAP1 PFN2

The genes are separated by response group according to which group they are upregulated in. “Upregulated” for each data type is defined as: larger magnitude copy number gains/smaller magnitude copy number loss, lower promoter methylation, higher gene expression, and enrichment in GSEA.