Table II. Examples for transcripts, proteins and HLA peptides upregulated by Decitabine treatment. CTA score of “1” indicates if the genes is not expressed in any healthy (not-testis) tissues (at levels above 9 in BioGPS, above 7 in Human Protein Atlas and above 300 in IST online). CTA score of “2” indicates some minor expression in a few normal tissues and a CTA score of “3” indicates a wide-spread expression in different healthy tissues. HLA score below 50 nM represents strong binding between the HLA molecules to its peptide. Antigens that were not detected in the untreated cells and detected in the treated cells were assigned a value of “I” and antigens detected only in the untreated cells and not detected in the treated cells were assigned a value of “−I.” (−) No data was available on this antigen in the specific database.

Tumor antigen	Cell line	HLA peptides	HLA type	HLA score According to NetMHC (nM)	Log2 (fold change) *			CTA score according to BioGPS	CTA score according to Human Protein Atlas	CTA score according to IST online
					HLA peptidome	Transcriptome	Proteome
MAGEA1	LNT−229	EADPTGHSY	B*3501	37.6	1.19	0.108681	0.1824322	1	1	1
		KVLEYVIKV	A*0201	6.9
		SAFPTTINF	B*3501	25	1.38
		SLFRAVITK	A*0301	13.5	−0.68
	T98G	KVLEYVIKV	A*0201	6.9	I	4.35744	I
	U-87	KEADPTGHSY	B*4402	65.4	I	3.00002	1.215848
		KVLEYVIKV	A*0201	6.9	I
MAGEA6	LNT-229	DPIGHVYIF	B*3501	13.1	1.05	0.173401	0.7706051	1	1	−
		FVQENYLEY	B*3501	8.1	2.67	0.173401	0.7706051
		LPTTMNYPL	B*3501	9.8	1.32
	T98G	KIWEELSVLEV	A*0201	87.4	1.64	2.84277
	U-87	KIWEELSVLEV	A*0201	87.4	I	1.48386	I
MFI2	LNT-229	SPLERYYDY	B*3501	26	I	0.842609	0.3690319	1	3	3
		VPVGEKTTY	B*3501	20.6	0.92
	T98G	SPLERYYDY	B*3501	26		1.71234
	U-87	AEGAGDVAF	B*4402	74.1	I	2.7002	I
		GEDIYTAGKTY	B*4402	4981.8	I
MAGEA4	LNT-229	EVDPASNTY	B*3501	27.4		6.11363	0.5748672	3	2	1
	T98G	GVYDGREHTV	A*0201	1751.8	I	6.58573	I
	U-87	GVYDGREHTV	A*0201	1751.8	I	7.3186	I
MAGEB2	LNT-229	SVFGEPWKLITK	A*0301	214.4	0.97	0.613071	0.130991	3	1	3
	T98G	GVYDGEEHSV	A*0201	1782.2	I	5.69166	1.763269
	U-87	GVYDGEEHSV	A*0201	1782.2	I	6.66147	1.982523
CYP1B1	LNT-229	FLDPRPLTV	A*0201	6.6	I	3.06777		3	3	3
		VPATITDIF	B*3501	13.7	I
	T98G	EHWKVQRRAA	B*4402	33263.6	I	2.40255	I
		FLDPRPLTV	A*0201	6.6	I
		FLDPRPLTVV	A*0201	19.1	4.24
	U-87	FADRPAFASF	B*3501	188.3	−0.33	0.350121	1.025126
		FLDPRPLTV	A*0201	6.6	−0.5
		FLDPRPLTVV	A*0201	19.1	−0.03
ABCC3	LNT-229	VLFGKALNPK	A*0301	11.1	3.05	3.62535		3	3	3
		YHYIFVTGVKF	C*0702	11502.3
	T98G	LLSFINPQL	A*020	33.8	−2.72
		PQTDFIIVL	B*3501	3298.5		−0.2201	I
		VLAPVILML	A*0201	22.4	−0.78
		VLFGKALNPK	A*0301	11.1	0.32
		YHYIFVTGV	B*3901	194.4	−0.27
		YHYIFVTGVKF	C*0702	11502.3	0.57
	U-87	GEISDPFRF	B*4402	105.8
		LLSFINPQL	A*0201	33.8	−0.91	2.0394	I
		PQTDFIIVL	B*3901	3298.5
		VLAPVILML	A*0201	22.4