Table V. Clonal analysis of HLA-B*42:01–restricted FL9-specific CD8+ T cell populations
Subject (ddmmyy)EpitopeCD8+Tet+pVLCD4TRBVCDR3TRBJFreq (%)
N037 (061009)FL91.331703605-1CASSHLDSGLAVDTEAF1-140.26
 HLA-A*29:02/30:0228CASSFRQGLGHTGELF2-225.97
 HLA-B*42:01/42:017-2CASSLWSGASNEQF2-124.68
 HLA-C*17:01/17:017-2CASSLYSGADQPQH1-57.79
7-2CASSLWPGASNEQF2-11.30
 No. cells sorted4059Count(77)
N021 (040211)FL90.582495107-2CASSLWGGDFSQEQF2-140.00
 HLA-A*30:01/34:027-2CASSLWSGVGDGYT1-235.00
 HLA-B*42:01/44:037-2CASSLYGGPEQPQH1-56.25
 HLA-C*07:01/17:017-9CASSPISDRSGNTIY1-35.00
7-2CASSLWAGVSDTQY*2-32.50
4-1CASSQDMKGGSFTGELF2-21.25
7-2CASSLWGGGFSQEQF2-11.25
7-2CASSLWGGDFSQERF2-11.25
7-2CASSLYSGGDQPQH**1-51.25
7-2CASSLYSGLDQPQH1-51.25
7-2CASSLYGGGEQPQH1-51.25
29-1CSVAGTGMTDTQY2-31.25
6-5CASRSGRTNEKLF1-41.25
5-1CASSLEAPTDTQY1-31.25
 No. cells sorted2753Count(80)
R014 (130907)FL91.011773007-2CASSLFSGPSQTQY2-523.75
 HLA-A*30:01/33:017-2CASSLYSGGGQPQH1-522.50
 HLA-B*42:01/57:037-2CASSLYSGGDKEQY2-710.00
 HLA-C*17:01/18:017-2CASSLYGSPDQPQH1-510.00
7-2CASSLYGGGDQPQH1-58.75
29-1CSGGGYGSGTYEQY2-76.25
7-2CASSLWAGETEAF1-16.25
7-2CASSLYSGGDQPQH**1-53.75
7-2CASSLYHSPTDQPQH1-51.25
7-2CASRLYSGGDKEQY2-71.25
7-2CASSLFSGASQTQY2-51.25
7-2CASSLYGRGDQPQH1-51.25
7-2CASSLYLAPNEKLF1-41.25
4-1CASSQDHGGGTEAF1-11.25
20-1CSARGGQLQETQY2-51.25
 No. cells sorted1892Count(80)
R094 (030810)FL90.26972423019CASSIKGYNEQF2-182.76
 HLA-A*29:02/30:0119CASSIQTGNSPLH1-65.75
 HLA-B*42:01/42:0119CASSIKGYNERF2-12.30
 HLA-C*17:01/17:0119CTSSIKGYNEQF2-12.30
5-4CASSFYPTDEQF2-12.30
19CASSIQTVNSPLH1-61.15
4-1CASSQEGGPAEQF2-11.15
29-1CSAGDWANNEQF2-11.15
19CASSIKGYNELF2-11.15
19CANSIKGYNEQF2-11.15
14CASSQDRREQY2-71.15
 No. cells sorted590Count(87)
N114 (080211)FL91.523825707-2CASSLWSGIADTQY2-375.90
 HLA-A*30:01/30:027-2CASSLWAGGSNEQF2-16.02
 HLA-B*42:01/57:0315CATSRDRETGGDYGYT1-23.61
 HLA-C*17:01/18:0124-1CATRDRDRENQPQH1-53.61
7-2CASSLWGGGDREQY2-71.20
7-2CASSLFSGGEETQY2-51.20
7-2CASSLWSGRADTQY2-31.20
7-2CASSLWSGGADTQY2-31.20
7-2CAGSLWSGIADTQY2-31.20
7-2CASSLWGGIADTQY2-31.20
7-2CASSLWAGVSDTQY*2-31.20
7-2CASSLYSGYDQPQH1-51.20
7-9CASSLEGVPVEF2-11.20
 No. cells sorted5000Count(83)
N080 (180808)FL91.815206107-2CASSLFGSPEQPQH1-538.81
 HLA-A*02:02/03:017-2CASSLYTGSDQPQH1-519.40
 HLA-B*15:03/42:017-2CASQLYSGGDQPQH1-513.43
 HLA-C*02:01/17:017-2CASSLYSGPDQPQH1-57.46
7-2CASSLWDQETQY2-54.48
7-2CASSLYTGGDQPQH1-52.99
7-2CASSLYSGAEQPQH1-52.99
7-2CASKLYTGGDQPQH1-52.99
7-2CVSSLFGSPEQPQH1-51.49
7-2CASSVFGGPDQPQH1-51.49
7-2CASSLYAGPDQPQH1-51.49
7-2CASSLFGSPGQPQH1-51.49
7-2CANSLYTGSDQPQH1-51.49
 No. cells sorted3223Count(67)
R066 (260610)FL90.2127NA7-2CASSLWGGPTNEQY2-750.00
 HLA-A*30:01/74:017-9CASSSVDRSSYEQY2-716.00
 HLA-B*42:01/53:017-2CASSLWGGSSNEQF2-110.00
 HLA-C*04:01/17:017-2CASSLFSGGDQPQH1-56.00
7-9CASSSVDRNSYEQY2-74.00
7-2CASSLWAGGSNEQF2-14.00
7-9CASSSVDRNSYEQY2-72.00
7-2CASSLWGGASNEQY2-72.00
7-2CASSLWAGGPETQY2-52.00
7-2CASSLWAGPSNEQF2-12.00
3-1CASSQGQSSYEQY2-72.00
 No. cells sorted1000Count(50)
N033 (100707)FL94156207-6CASSLERSSEQY2-762.71
 HLA-A*30:01/36:014-1CASSQDRGPDTQY2-318.64
 HLA-B*42:01/53:0116-1CASSEGRDQETQY2-56.78
 HLA-C*04:01/17:0120-1CSARTYAGGTDTQY2-31.69
16-1CTSSEGRDQETQY2-51.69
16-1CAGSEGRDQETQY2-51.69
7-7CASSPARGTDTQY2-31.69
7-3CASSKDRGTDTQY2-31.69
29-1CSVEDSLVNEQF2-11.69
 14-1CASRGTGESPLH1-61.69
 No. cells sortedNDCount(59)
  • Columns show (from left to right): HLA genotyping data below each subject identifier with sample date in parentheses; targeted epitope; frequency of tetramer+ (Tet+) cells in the total CD8+ T cell population; plasma viral load (pVL; HIV RNA copies/ml plasma); CD4+ T cell count (CD4; cells/μl blood); TRBV usage; CDR3 aa sequence; TRBJ usage; and clonotype frequency (%). Public clonotypes are indicated in bold type and symbol matched.

  • Data represent one time point/subject.