Immune response to JC virus T antigen in patients with and without colorectal neoplasia

Figures & data

Table 1. Summary of the patients enrolled in the study

	Patient Population
		Number	Mean age (SD)	P-Value
Total		60	60.3 (11.9)	-
Gender	Female	25	61.6 (11.9)	0.24
	Male	35	59.3 (12.0)
Ethnicity	African American	10	61.3 (9.4)	0.87
	Caucasian	48	60.2 (12.6)
	Hispanic	2	56.5 (7.8)
Diagnosis	Adenocarcinoma	20	64.7 (12.5)	0.17
	Adenomatous Polyp	20	59.0 (13.8)
	Hyperplastic Polyp	8	58.3 (8.0)
	Without Neoplasia	12	55.5 (8.1)

Figure 1. IL-10-fold change heatmap. The fold change of the supernatant levels of IL-10 from the three groups compared with the NC, as evaluated on Day 2, NC is a negative control. The clusters are listed across the top and the three cohorts are listed on the y axis.

Figure 2. IL-13-fold change heatmap. The fold change of the supernatant levels of IL-13 from the three groups compared with the NC, as evaluated on Day 2, NC is a negative control. The clusters are listed across the top and the three cohorts are listed on the y axis.

Figure 3. IL-2-fold change heatmap. The fold change of the supernatant levels of IL-2 from the three groups compared with the NC, as evaluated on Day 2, NC is a negative control. The clusters are listed across the top and the three cohorts are listed on the y axis.

Figure 4. IP-10-fold change heatmap. The fold change of the supernatant levels of IP-10 from the three groups compared with the NC, as evaluated on Day 2. NC is a negative control. The clusters are listed across the top and the three cohorts are listed on the y axis.

Figure 5. CD4⁺ and CD8⁺ T cell proliferation. (A) CD4⁺ and CD8⁺ T cell proliferation. The CD4⁺ T cell proliferation is the first set of 3 for the cohorts and the CD8⁺ T cell proliferation is the second set of the three cohorts. T cells are represented as the percentage of total cells. Standard error of the mean is represented above each column. (B) CD4⁺ and CD8⁺ T cell proliferation from a strong stimulating cluster. Representative patients for T cell proliferation from the three groups for cluster 1, a cluster stimulating a strong response. CFSE decreases in replicating cells, indicated by a population shift to the left. The CD4⁺ and CD8⁺ staining is indicated on the y axis and the CFSE staining is on the x axis. (C) CD4⁺ and CD8⁺ T cell proliferation from a poorly stimulating cluster. Representative patients for T cell proliferation from the three groups for cluster 15, representing a weak response. CFSE decreases in replicating cells, indicated by a population shift to the left. The CD4⁺ and CD8⁺ staining is indicated on the y axis and the CFSE staining is on the x axis.

Table 2. The amino acids in the peptide clusters for T Antigen stimulation of PBMCs

		JCV T Antigen Peptide Clusters
Cluster	AA	Sequence		Target
C1	1–51	mdkvlnrees melmdllgld rsawgnipvm rkaylkkcke lhpdkggded k	POL α
C2	41 - 91	lhpdkggded kmkrmnflyk kmeqgvkvah qpdfgtwnss evptygtdew e	POL α
C3	81 - 131	evptygtdew eswwntfnek wdedlfchee mfasddentg sqhstppkkk k	pRB	p107	Phosphorylation site
C4	121 - 171	sqhstppkkk kkvedpkdfp vdlhaflsqa vfsnrtvasf avyttkekaq i		Helicase	DNA binding NLS
C5	161 - 211	avyttkekaq ilykklmeky svtfisrhgf gghnilfflt phrhrvsain n		Helicase	DNA binding
C6	201 -251	phrhrvsain nycqklctfs flickgvnke ylfysalcrq pyavveesiq		Helicase	DNA binding
C7	241 - 291	pyavveesiq gglkehdfnp eepeetkqvs wklvtqyale tkcedvfllm g	POL α	Helicase	DNA binding Zinc finger
C8	281 - 331	tkcedvfllm gmyldfqenp qqckkcekkd qpnhfnhhek hyynaqifad s	POL α	Helicase	Zinc finger
C9	321 - 371	hyynaqifad sknqksicqq avdtvaakqr vdsihmtree mlverfnfll d	POL α	Helicase	Zinc finger
C10	361 - 411	mlverfnfll dkmdlifgah gnavleqyma gvawihcllp qmdtviydfl k	POL α	Helicase
C11	401 - 451	qmdtviydfl kcivlnipkk rywlfkgpid sgkttlaaal ldlcggksln v	POL α	Helicase	ATP binding. ATPase
C12	441 - 491	ldlcggksln vnmplerlnf elgvgidqfm vvfedvkgtg aesrdlpsgh g	POL α	Helicase	ATP binding. ATPase
C13	481 - 531	aesrdlpsgh gisnldclrd yldgsvkvnl erkhqnkrtq vfppgivtmn e	POL α	Helicase	ATP binding. ATPase
C14	521 - 571	vfppgivtmn eysvprtlqa rfvrqidfrp kaylrkslsc seyllekril q		Helicase; p53	ATP binding. ATPase
C15	561 - 611	seyllekril qsgmtlllll iwfrpvadfa aaiherivqw kerldleism y		Helicase; p53	ATP binding. ATPase
C16	601 - 651	kerldleism ytfstmkanv gmgrpildfp reedseaeds ghgsstesqs q		Helicase; p53	ATP binding. ATPase
C17	641 - 688	ghgsstesqs qcfsqvseas gadtqenctf hickgfqcfk kpktpppk	p53	Host range	Phosphorylation site

AA, amino acid; POL α, DNA polymerase α; NLS, nuclear localization signal.