Table 2. Comparison of in silico search rules.

Whether in silico search rules resulted in the identification of cross-reactive epitope are indicated as yes, no, or not applicable (N/A) when the data do not exist.

HLA restriction		A*02:01		A*01:01	A*02:01	A*02:01
Intended antigen (epitope amino acid sequence)		MAGE-A3 (KVAELVHFL)		MAGE-A3 (EVDPIGHLY)	CD20 (SLFLGILSV)	EBV LMP2 (CLGGLLTMV)
Cross-reactive antigen (cross-reactive epitope amino acid sequence)		MAGE-A12 (KMAELVHFL)	EPS8L2 (SAAELVHFL)	Titin (ESDPIVAQY)	TTMP (SIFLGVITV)	TMEM161A (ALGGLLTPL)
In silico search rule	Alanine scanning and motif-guided	N/A	N/A	Yes	No	Yes
	Physicochemical grouping	Yes	No	No	Yes	No
	BLOSUM62—0 and above	Yes	Yes	No	Yes	No
	BLOSUM62—1 and above	Yes	No	No	Yes	N/A
	PAM30—0 and above	No	No	No	No	N/A
	PAM30—1 and above	No	No	No	No	N/A
	CPL-scan-data guided	N/A	N/A	N/A	Yes	N/A