Table 3: Summary of cleavage sites altered upon cellular activation.

Amino acid pairs that appeared at least 4 times in the full dataset (24 peptides) and that were consistently affected in the same manner upon CD3/CD28-stimulation were selected (6 or 7 out of 7 datasets in agreement). The ranges of the cleavage score ratio (cleavage site score from CD3/CD28-stimulated divided by score of the matching non-stimulated sample) are also reported for the datasets.

Amino acid pair	Number of instances in 24 peptides	Number of cleavage sites observed	Trend observed	Datasets in agreement (out of 7)	Cleavage score ratio range
EE	11	7	Increased	7	1.5-2.25
ER	5	5	Increased	7	1.7-2.65
LK	5	5	Increased	6	1.28-3.24
TL	5	5	Increased	6	1.30-1.75
YK	5	5	Increased	6	1.21-1.62
LH	5	4	Increased	7	1.24-1.49
LN	4	3	Increased	6	1.74-1.89
QN	4	3	Increased	6	3.56-4.19
EV	4	4	Increased	6	2.22-2.43
GQ	4	4	Increased	7	2.08-4.9
PI	4	4	Increased	6	1.26-2.1
QA	4	4	Increased	7	1.28-1.48
TS	4	4	Decreased	6	0.73-0.76
EL	6	6	Decreased	6	0.66-0.78
SQ	6	5	Decreased	6	0.4-0.62
SL	6	3	Decreased	7	0.44-0.71
AS	4	4	Decreased	7	0.3-0.76
PV	4	4	Unchanged	7	0.99-1.12
AA	6	6	Unchanged	7	0.98-1.03
PE	5	4	Unchanged	6	0.86-0.94
AE	4	4	Unchanged	6	0.9-0.92