Evolutionary Principles in Viral Epitopes - Mathematical Methods and Models in Biomedicine - page 63

1
0.9
0.8
0.7
0.6
0.5
0.4
0.3
0.2
0.1
0

** **

**

**

latent

** **

IE

all

lytic

HSV-1 CMV KSHV EBV

Fig. 4 The average SIR score of latent, IE and lytic proteins. Data is shown for HSV1, CMV,
KSHV and EBV. Each column represents proteins highly expressed in different phases: latent, IE,
all and lytic. All represents all the viral proteins and IE represent proteins highly expressed in IE
phase and so on. Two stars represent a p value of less than 0.01 and one star represents a p value
of less than 0.05. The latent proteins express less epitopes (per candidate nonamer) than the IE (for
the KHSV, p 001, while for the EBV the difference is not statistically different). Both the IE

and the latent proteins express less than the lytic proteins ( p

< 0 .

001). The values are the average
SIR score over all HLAs, weighted by the HLA frequency in the total human population

< 0 .

0.25

**

all

latent IE lytic

0.2

*

0.15

**

*

0.1

0.05

0

HSV-1 CMV KSHV EBV

Fig. 5 The similarity of viral epitopes to self-epitopes. Data is shown for all the viruses. Each
column represents proteins highly expressed in different phases: All represents all the viral
proteins. Each of the other groups represents proteins highly expressed in the lytic, latent and
IE phases. The IE and the latent proteins are much more similar to the selfepitopes than the
lytic proteins (for HSV-1 and latent KHSV p < 0 . 01, marked with two stars , for CMV and IE

KHSV p 05, marked with a star ). There is no statistical difference between similarity to self

of proteins in the latent and IE groups

< 0 .