Table 4.

Sequences of primers and probes used for clonotypic assays

Probes	Primers
Quantitative clonotypic assays*
jb1-1FAM	FAM-CAAGGCACCAGACTCACAGT-BHQ-1
jb2-1FAM	FAM-AGCAGTTCTTCGGGCCAG-MGBNFQ
jb2-3FAM	FAM-CAGTATTTTGGCCCAGGCA-MGBNFQ
vb12jb2.3BM sense, patient no. 31	5′-AGTTATGGAGCGGGGGCTAGCAC-3′
vb13jb2.3BM sense, patient no. 37	5′-AGTTCCATCGGAAGGACTAGTAC-3′
vb6jb2.3PB sense, patient no. 39	5′-TGCGTATCCACCGGAGGAGAG-3′
vb14jb2.3BM sense, patient no. 40	5′-AGCAGGGAGACTAGCGGTCACAC-3′
vb23jb2.1PB sense, patient no. 40	5′-CATTGATTCCCTGTCCCGGGAAG-3′
vb15jb2.3PB sense, patient no. 41	5′-CTGCGTATCTGTGTCCCCTGTCC-3′
vb24jb2.5PB sense, patient no. 41	5′-GGTCTCTCCTCCTACTCTGC-3′
vb7jb2.1PB sense, patient no. 42	5′-TGTAAGGGTAGGCCCCGGTG-3′
CB antisense	5′-CTGCTTCTGATGGCTCAAACAC-3′
Clonotypic PCR assays on biopsy tissues†
vb6 sense	5′-TCTCAGGTGTGATCCAAATTCGGG-3′
vb7 sense	5′-CCTGAATGCCCCAACAGCTCTCTC-3′
vb15 sense	5′-CAGGCACAGGCTAAATTCTCCCTG-3′
vb23 sense	5′-GCAGGGTCCAGGTCAGGACCCCCA-3′
vb24 sense	5′-CCCAGTTTGGAAAGCCAGTGACCC-3′
vb6jb2.3PB antisense, patient no. 39	5′-TGCGTATCCACCGGAGGAGAG-3′
vb23jb2.1PB antisense, patient no. 40	5′-CATTGATTCCCTGTCCCGGGAAG-3′
vb15jb2.3PB antisense, patient no. 41	5′-CTGCGTATCTGTGTCCCCTGTCC-3′
vb24jb2.5PB antisense, patient no. 41	5′-GGTCTCTCCTCCTACTCTGC-3′
vb7jb2.1PB antisense, patient no. 42	5′-TGTAAGGGTAGGCCCCGGTG-3′
jb2.1 antisense	5′-CCTTCTTACCTAGCACGGTGA-3′
jb2.3 antisense	5′-CCCGCTTACCGAGCACTGTCA-3′
jb2.5 antisense	5′-CGCGCACACCGAGCAC-3′

FAM-labeled and minor groove binder (MGB) or black hole quencher 1 (BHQ1) quenched probes were used for quantitative PCR. CB reverse primer was designed to cover both CB1 and CB2 chains

PB indicates primer designed from CDR3 sequence detected in peripheral blood; and BM, primer designed from BM-derived clonotype

^*Shown in Figure 4A, C

^†Shown in Figure 4B