Table 3 Methods used to determine the... | American Society of Hematology

Table 3

Methods used to determine the accumulation of transferred HIV- and CMV-specific T cells in the rectal mucosa

Patient no.	Clone specificity	Epitope	HLA restriction	Vβ usage	Method used to detect clones in rectal biopsies
Patient no.	Clone specificity	Epitope	HLA restriction	Vβ usage	Quantitative TCR-PCR	Qdot on fresh tissue	Qdot on cryopreserved tissue
7701	HIV-GAG	GEIYKRWII	HLA B*0801	Vβ13	X	Not available†
7701	CMV-pp65	NLVPMVATV	HLA A*0201	Vβ8	X	Not available†
7702	HIV-GAG	GEIYKRWII	HLA B*0801	Vβ13		Not available†	X
7702	CMV-pp65	NLVPMVATV	HLA A*0201	Vβ3		Not available†	X
7703	HIV-GAG	GEIYKRWII	HLA B*0801	Vβ2		Not available†	X
7703	CMV-pp65	NLVPMVATV	HLA A*0201	Vβ8		Not available†	X
7704	HIV-RT-POL	ILKEPVHGV	HLA A*0201	Vβ3	X	Not available†
7704	CMV-pp65	IPSINVHHY	HLA B*3501	Vβ3/13	Not done‡	Not available†
7705	HIV-ENV	IPRRIRQGL	HLA B*0702	Vβ14		Not available†	X
7705	CMV-pp65	RPHERNGFTVL	HLA B*0701	Vβ12		Not available†	X
7707	HIV-NEF	QVPLRPMTYK	HLA A*0301	Vβ6	X	X
7707	CMV-pp65	IPSINVHHY	HLA B*3501	Vβ1	X	Not available†
7709	HIV-GAG	KRWIILGLNK	HLA B*2705	Vβ13	Not done‡	X
7709	CMV-pp65	YSEHPTFTSQY	HLA A*0101	Vβ13	Not done‡	Not available†

Patient no.	Clone specificity	Epitope	HLA restriction	Vβ usage	Method used to detect clones in rectal biopsies
Patient no.	Clone specificity	Epitope	HLA restriction	Vβ usage	Quantitative TCR-PCR	Qdot on fresh tissue	Qdot on cryopreserved tissue
7701	HIV-GAG	GEIYKRWII	HLA B*0801	Vβ13	X	Not available†
7701	CMV-pp65	NLVPMVATV	HLA A*0201	Vβ8	X	Not available†
7702	HIV-GAG	GEIYKRWII	HLA B*0801	Vβ13		Not available†	X
7702	CMV-pp65	NLVPMVATV	HLA A*0201	Vβ3		Not available†	X
7703	HIV-GAG	GEIYKRWII	HLA B*0801	Vβ2		Not available†	X
7703	CMV-pp65	NLVPMVATV	HLA A*0201	Vβ8		Not available†	X
7704	HIV-RT-POL	ILKEPVHGV	HLA A*0201	Vβ3	X	Not available†
7704	CMV-pp65	IPSINVHHY	HLA B*3501	Vβ3/13	Not done‡	Not available†
7705	HIV-ENV	IPRRIRQGL	HLA B*0702	Vβ14		Not available†	X
7705	CMV-pp65	RPHERNGFTVL	HLA B*0701	Vβ12		Not available†	X
7707	HIV-NEF	QVPLRPMTYK	HLA A*0301	Vβ6	X	X
7707	CMV-pp65	IPSINVHHY	HLA B*3501	Vβ1	X	Not available†
7709	HIV-GAG	KRWIILGLNK	HLA B*2705	Vβ13	Not done‡	X
7709	CMV-pp65	YSEHPTFTSQY	HLA A*0101	Vβ13	Not done‡	Not available†

Qdot reagents not available at the time fresh biopsies were obtained.

Specific TaqMan probes could not be designed (short and/or G-rich regions within the rearranged TCR genes).