Table 4

Protease and Reverse Transcriptase HLA-HIV codon associations in free plasma virus RNA and PBMC proviral DNA for the Mexican cohort.

Free plasma virus pol sequences†

PBMC proviral pol sequences†

HLA

Associated HIV Codon

Conditioning variables

p-value

q-value

HLA

Associated HIV codon

Conditioning variables

p-value

q-value

A*02^c

PR

15I

PR 77V^c, PR 36M^d, PR 13I^a

0,0010442

0,1522376

A*03^b

RT

277R

1,14E-08

1,10E-05

A*03^b

RT

277R

1,74E-09

1,48E-05

A*03^a

RT

277K

1,14E-08

1,10E-05

A*03^a

RT

277K

1,74E-09

1,48E-05

A*11^b

RT

333E

PR 35E^c, RT 293I^a, RT 207Q^d, PR 62I^d

0,00113806

0,1336789

A*30^c

RT

281K

RT 278Q^d

0,00109204

0,1336789

A*68^a

RT

326V

0,00035689

0,1048983

B*07^b

RT

165I

0,00067347

0,1191747

B*07^a

RT

165T

0,00067347

0,1191747

B*18^b

RT

138A

0,00012948

0,0494756

B*18^a

RT

138E

0,00012948

0,0494756

B*18^b

RT

245E

PR 45K^c

0,00068267

0,1191747

B*18^b

RT

177D

0,00094587

0,1312293

B*18^b

RT

177D

RT 123D^d, RT 121D ^d

0,0017257

0,19555

B*18^a

RT

177E

0,00094513

0,1312293

B*18^a

RT

177E

0,0006388

0,1183628

B*18^a

RT

245V

0,00115452

0,1336789

B*27^a

RT

135I

B*51^a, PR 12T^d, RT 202I^d

0,00096164

0,1312293

B*39^a

RT

102R

B*48^b, RT 64K^a

0,00016533

0,0539628

B*39^c

PR

71V

PR 93L^d, PR 39P^a, PR 57K^d, Cw*15^b

0,00193116

0,1994313

B*39^c

PR

71V

PR 57R^a, PR 93I^c, Cw*15^d, RT 178M^b, PR 39P^a

0,0003592

0,0888581

B*39^a

PR

60E

PR 39Q^b, PR 37D^b, PR 37E^b

0,0019258

0,199068

B*44^b

PR

35D

1,16E-08

1,10E-05

B*44^b

PR

35D

5,77E-08

0,0002091

B*44^a

PR

35E

1,16E-08

1,10E-05

B*44^a

PR

35E

5,77E-08

0,0002091

B*44^a

RT

211R

0,00112279

0,1336789

B*44^a

RT

329I

RT 334L^b

0,00120957

0,1359348

B*48^b

RT

102R

2,47E-08

1,89E-05

B*48^b

RT

102R

1,53E-11

3,88E-07

B*48^a

RT

102K

0,00016947

0,0539628

B*48^a

RT

102K

1,90E-05

0,0120849

B*48^a

RT

276V

RT 272P^c, Cw*07^c

0,0005419

0,1049938

B*49^a

RT

48S

0,0004979

0,1035941

B*49^b

RT

48T

0,0004979

0,1035941

B*51 ^a

RT

135I

4,03E-07

0,0002198

B*51^b

PR

12S

0,00038855

0,1060476

B*51^b

PR

14R

RT 135I^a, RT 200A ^a

0,00144043

0,1528856

B*51^b

PR

14R

7,41E-06

0,005226

B*51 ^a

PR

14K

RT 135I^b, RT 200A^b

0,00138006

0,1506635

B*51^a

PR

14K

7,41E-06

0,005226

B*52^b

PR

12A

5,59E-07

0,0002671

B*52^b

PR

12A

RT 135T^d

0,0005416

0,1049938

B*52 ^a

PR

12T

3,73E-08

2,38E-05

B*52^a

PR

12T

1,60E-06

0,0016939

B*57^b

RT

297A

0,00060553

0,1191747

B*57^b

RT

297A

0,0004121

0,0941468

Cw*03^b

RT

283I

0,0017747

0,1964929

Cw*03^a

RT

283L

0,0017747

0,1964929

Cw*03^b

PR

12P

PR 14R^d, PR 67C^c

0,00070538

0,1191747

Cw*05^b

RT

214L

RT 118I^b

0,00065426

0,1191747

Cw*05^b

RT

214L

RT 118V^c

0,0002149

0,0665192

Cw*05 ^a

RT

214F

RT 118I^a

0,00065426

0,1191747

Cw*05^a

RT

214F

RT 118V^d

0,0002149

0,0665192

Cw*07^c

RT

276V

RT 272P^c

0,00054742

0,1191747

Cw*07^c

RT

276V

RT 272P^c

0,0004154

0,0941468

Cw*07 ^a

RT

179D

0,00072749

0,1191747

Cw*12^b

RT

162S

PR 64L^b, RT 165T^c, PR 91T^c, RT 135V^a

0,00106536

0,1336789

Cw*15^a

PR

18Q

0,00074855

0,1191747

Cw*15^b

PR

71V

PR 93L^d, PR 39P^a, PR 57K^d

0,0009574

0,1312293

†Associations for 250 plasma virus sequences and the corresponding PBMC proviral sequences with q < 0.2 are shown. ^a escape (having the predictor makes it less likely to have the target), ^b attraction (having the predictor makes it more likely to have the target), ^c reversion (not having the predictor makes it more likely to have the target), ^d repulsion (not having the predictor makes it less likely to have the target.

Avila-Rios et al. Retrovirology 2009 6:72   doi:10.1186/1742-4690-6-72