A computational method for designing diverse linear epitopes including citrullinated peptides with desired binding affinities to intravenous immunoglobulin

Table 3 The presence of citrulline and cysteine in the designed peptides and the training and test sets

	Total	With Z	With C	With Z and C
Training set High	3420	8	906	3
Training set Low	10218	326	1971	71
Test set High	3421	5	944	3
Test set Low	10219	356	2032	93
Pythia-design “H”	1500	1286	1302	1093
Pythia-design “M”	3000	2885	2365	2253
Pythia-design “L”	1500	1484	1044	1029
Pythia-design “H” tested	400	318	344	265
Pythia-design “L” tested	200	185	150	136
Barbarini et al. [2] “H”	1100	0	420	0
Barbarini et al. [2] “L”	1100	0	628	0
Barbarini et al. [2] “H” tested	400	0	196	0
Barbarini et al. [2] “L” tested	200	0	110	0

The prevalence of citrulline and cysteine is likely due to the fact that citrulline and cystiine were less represented in the peptides used in the training data sets, allowing these designed peptides to more easily satisfy the imposed diversity requirements

ISSN: 1471-2105