Data
Patient id |
Time point (years) |
CD4 count |
Viral load |
HIV diversity (pi) |
AB diversity (pi) |
AB divergence |
HIV synonymous divergence |
HIV non-synonymous divergence |
HIV selection (dN/dS) |
AbR baseline mean sigma CDR |
AbR baseline mean sigma FWR |
1 |
3.134246575 |
650 |
10921 |
0.962883074 |
31.42784051 |
0.025343316 |
0.003431918 |
0.009771407 |
0.897678174 |
-0.267096465 |
-0.626047382 |
1 |
3.597260274 |
638 |
10953 |
0.923537102 |
30.58687734 |
0.017401099 |
0.004464967 |
0.010485998 |
0.665737803 |
-0.424897436 |
-0.634765338 |
1 |
4.038356164 |
588 |
6776 |
1.030236894 |
33.34546146 |
0.033766187 |
0.010967445 |
0.008186044 |
0.587132954 |
0.067016208 |
-0.647559682 |
1 |
4.509589041 |
594 |
8282 |
1.664950215 |
30.62854942 |
0.03072828 |
0.02144313 |
0.013908429 |
0.668481704 |
-0.051294197 |
-0.497362125 |
1 |
4.939726027 |
504 |
8180 |
2.359579284 |
31.45303203 |
0.022937954 |
0.013804519 |
0.021766889 |
1.329512927 |
-0.259059035 |
-0.670731385 |
1 |
5.37260274 |
480 |
11219 |
1.013113077 |
33.06618029 |
0.041278368 |
0.02753884 |
0.022165023 |
0.892786492 |
0.109878325 |
-0.781401594 |
1 |
6.339726027 |
527 |
10369 |
3.336719573 |
33.06845236 |
0.03916407 |
0.032236368 |
0.034268363 |
1.241403925 |
-0.005876142 |
-0.580941297 |
1 |
6.761643836 |
530 |
12393 |
2.386692622 |
32.49247074 |
0.032470667 |
0.029811622 |
0.050361987 |
1.788219409 |
-0.035170866 |
-0.586913318 |
1 |
7.775342466 |
553 |
3748 |
1.420556338 |
30.9622112 |
0.025423737 |
0.029438954 |
0.043389359 |
1.537030342 |
-0.296303235 |
-0.509235234 |
1 |
8.78630137 |
462 |
3985 |
2.312157877 |
30.19324967 |
0.028966396 |
0.043628562 |
0.050026131 |
1.312444272 |
-0.005679978 |
-0.510372316 |
1 |
9.043835616 |
462 |
2513 |
4.980656284 |
32.89510597 |
0.024732189 |
0.057028981 |
0.042658621 |
1.05908435 |
-0.235467482 |
-0.683055702 |
1 |
9.632876712 |
400 |
9174 |
3.908967923 |
31.71970856 |
0.028645347 |
0.063160135 |
0.050499447 |
0.853462554 |
-0.207488574 |
-0.717251318 |
1 |
10.05205479 |
422 |
7655 |
4.109722179 |
32.99668486 |
0.046175176 |
0.070027695 |
0.061830139 |
0.943240244 |
-0.065406573 |
-0.775309244 |
1 |
10.49315068 |
469 |
6998 |
6.243090511 |
33.1681666 |
0.034083624 |
0.077590675 |
0.069690991 |
0.996994107 |
-0.078837026 |
-0.541306118 |
1 |
11 |
407 |
6351 |
5.241385215 |
31.31501605 |
0.034829487 |
0.04563295 |
0.049390097 |
1.651579772 |
-0.034298244 |
-0.573489768 |
1 |
11.46027397 |
354 |
8034 |
5.106067329 |
32.40244583 |
0.035162056 |
0.073951615 |
0.076666888 |
1.104567981 |
-0.13853098 |
-0.55418999 |
1 |
11.88219178 |
463 |
8576 |
NA |
NA |
NA |
NA |
NA |
NA |
NA |
NA |
1 |
12.32328767 |
NA |
6074 |
2.429638373 |
31.38306512 |
0.024938877 |
0.08366321 |
0.080737896 |
0.986944971 |
-0.222589876 |
-0.624221247 |
1 |
12.76712329 |
377 |
10732 |
1.717734914 |
32.15417293 |
0.024681057 |
0.116208691 |
0.0929822 |
0.804067117 |
-0.131803255 |
-0.659684416 |
1 |
13.43287671 |
361 |
5551 |
4.302853265 |
31.9195419 |
0.032727179 |
0.050587386 |
0.077495352 |
1.649461183 |
-0.02063332 |
-0.600621653 |
1 |
14.36986301 |
NA |
NA |
NA |
33.55786864 |
0.043449362 |
NA |
NA |
NA |
0.05229394 |
-0.606128091 |
2 |
2.745205479 |
520 |
8828 |
1.316956761 |
30.63020186 |
0.05074184 |
0.029787229 |
0.008508336 |
0.285900939 |
-0.003463204 |
-0.77783611 |
2 |
3.145205479 |
391 |
9934 |
1.148209349 |
33.00126006 |
0.026016124 |
0.028081865 |
0.021967405 |
0.852368239 |
-0.091579265 |
-0.685207046 |
2 |
4.024657534 |
567 |
11900 |
1.787466782 |
33.39781293 |
0.033760821 |
0.018193731 |
0.03095216 |
1.700962169 |
0.1012852 |
-0.626537558 |
2 |
4.509589041 |
368 |
7026 |
1.790802817 |
32.22950985 |
0.024295536 |
0.030678953 |
0.041818922 |
1.415825804 |
0.053358696 |
-0.641258488 |
2 |
5.005479452 |
351 |
3565 |
2.06066574 |
32.16383597 |
0.019586797 |
0.033814167 |
0.068577922 |
2.242408836 |
-0.186683821 |
-0.717242142 |
2 |
5.449315068 |
317 |
6220 |
3.928410266 |
33.22997869 |
0.027391557 |
0.047406467 |
0.061760019 |
1.369855977 |
0.073454088 |
-0.635910267 |
2 |
5.945205479 |
350 |
12279 |
3.785100571 |
33.31775315 |
0.033616307 |
0.047198098 |
0.069764406 |
1.566392472 |
0.131170993 |
-0.616544825 |
2 |
6.964383562 |
336 |
15292 |
2.753306128 |
33.09033122 |
0.026094255 |
0.049463788 |
0.081525156 |
1.76573255 |
-0.007704933 |
-0.749593583 |
2 |
7.397260274 |
360 |
6322 |
2.350467311 |
32.56348663 |
0.023278955 |
0.054751754 |
0.089084306 |
1.822180658 |
-0.055608864 |
-0.798462486 |
2 |
7.750684932 |
340 |
5625 |
1.121208048 |
31.25649906 |
0.016967131 |
0.050760733 |
0.094362017 |
2.026559287 |
-0.123303977 |
-0.689944554 |
2 |
8.210958904 |
176 |
4734 |
2.205531425 |
31.74555522 |
0.02578669 |
0.054486073 |
0.100099013 |
1.974405769 |
0.1269517 |
-0.600845896 |
2 |
8.682191781 |
237 |
9101 |
0.148174358 |
31.37915793 |
0.020522666 |
0.053611645 |
0.106013731 |
2.060367691 |
-0.080693979 |
-0.676488696 |
2 |
9.301369863 |
189 |
11593 |
1.584406456 |
32.86482228 |
0.035537331 |
0.067149577 |
0.105428996 |
1.675328744 |
0.176757798 |
-0.591647614 |
2 |
10.50410959 |
176 |
39454 |
1.363059734 |
32.67917686 |
0.038789594 |
0.083094849 |
0.109266258 |
1.367922853 |
0.09302012 |
-0.668206682 |
2 |
10.96438356 |
139 |
29596 |
3.054054317 |
32.48181141 |
0.025192463 |
0.081434576 |
0.108395173 |
1.42436792 |
0.056207524 |
-0.705078075 |
2 |
11.43287671 |
110 |
103761 |
3.410130119 |
31.48490636 |
0.029114285 |
0.088192815 |
0.111931043 |
1.381522668 |
0.118806226 |
-0.408076769 |
2 |
12.75616438 |
NA |
NA |
NA |
31.27132389 |
0.024495479 |
NA |
NA |
NA |
0.022679057 |
-0.892745548 |
3 |
0.265753425 |
468 |
2221 |
0.047449332 |
29.47460691 |
0.014242464 |
0.000282585 |
0.000207769 |
0 |
-0.357771594 |
-0.624391373 |
3 |
0.734246575 |
448 |
3231 |
0.042142137 |
29.36624759 |
0.012599267 |
0.013644318 |
0.000204011 |
0.015066734 |
-0.432444182 |
-0.751816309 |
3 |
1.194520548 |
NA |
1613 |
0.061852863 |
28.63114301 |
0.008329784 |
0.013842149 |
0.004012099 |
0.292305783 |
-0.662083794 |
-0.694745704 |
3 |
2.032876712 |
624 |
2109 |
0.743863572 |
NA |
NA |
0.026394386 |
0.001857208 |
0.061252022 |
NA |
NA |
3 |
2.589041096 |
476 |
6664 |
1.129648696 |
30.04415296 |
0.012903019 |
0.021229446 |
0.008442182 |
0.404289707 |
-0.494846196 |
-0.875943618 |
3 |
3.471232877 |
409 |
6549 |
1.150376726 |
29.13738406 |
0.011304102 |
0.040226297 |
0.008682105 |
0.261668371 |
-0.549365975 |
-0.616802045 |
3 |
3.947945205 |
403 |
3667 |
0.674232164 |
28.82893615 |
0.011571662 |
0.030484467 |
0.008995857 |
0.328854139 |
-0.462970982 |
-0.777494664 |
3 |
4.868493151 |
363 |
4932 |
1.811972999 |
28.55817962 |
0.012411633 |
0.035614685 |
0.016886386 |
0.550634013 |
-0.585655447 |
-0.612835723 |
3 |
5.731506849 |
384 |
7303 |
1.27073511 |
29.05499991 |
0.018074113 |
0.020002489 |
0.022864405 |
1.293578705 |
-0.315942979 |
-0.799855179 |
3 |
7.189041096 |
299 |
2585 |
2.366997304 |
30.61573159 |
0.016332178 |
0.027196213 |
0.040154759 |
1.892235443 |
-0.494823232 |
-0.816107691 |
4 |
0.197260274 |
950 |
1723 |
NA |
33.60841293 |
0.04552731 |
NA |
NA |
NA |
-0.03646416 |
-0.456966967 |
4 |
0.479452055 |
1116 |
1984 |
0.058345895 |
31.36586155 |
0.026122568 |
0.000390052 |
0.000269228 |
0.008019673 |
-0.194815728 |
-0.58890989 |
4 |
1.169863014 |
828 |
4813 |
0.305460468 |
31.80475096 |
0.030721244 |
0.026640714 |
0.01625455 |
0.608655559 |
-0.062243265 |
-0.610559828 |
4 |
2.093150685 |
713 |
20446 |
1.169835931 |
32.06802556 |
0.026445265 |
0.037462615 |
0.015289173 |
0.428712666 |
0.064507736 |
-0.486473972 |
4 |
2.495890411 |
707 |
2813 |
1.030319695 |
32.3559103 |
0.035076064 |
0.048370938 |
0.023252046 |
0.497725135 |
-0.011722417 |
-0.496007499 |
4 |
3.468493151 |
578 |
7710 |
1.440200983 |
32.16179555 |
0.031314085 |
0.041660105 |
0.034853006 |
0.892496439 |
-0.020633173 |
-0.538196995 |
4 |
4.424657534 |
692 |
6278 |
2.153188247 |
31.22325927 |
0.017334451 |
0.059304571 |
0.042936624 |
0.760283138 |
-0.257733638 |
-0.619946775 |
4 |
4.868493151 |
467 |
2944 |
2.356668756 |
33.01436461 |
0.038746636 |
0.077734484 |
0.051085287 |
0.66978532 |
0.080584945 |
-0.477979153 |
4 |
5.353424658 |
525 |
1849 |
0.064181983 |
31.83308039 |
0.03937085 |
0.105722779 |
0.060380244 |
0.552741169 |
-0.015193539 |
-0.638685016 |
4 |
6.232876712 |
446 |
4507 |
0.06106054 |
32.44487091 |
0.029330093 |
0.079297017 |
0.064148582 |
0.80084683 |
-0.008676885 |
-0.530346169 |
5 |
0.523287671 |
515 |
1324 |
0.065729784 |
30.70108964 |
0.015470772 |
0.000358183 |
0.000294974 |
0.002322547 |
-0.185848929 |
-0.613419058 |
5 |
0.6 |
601 |
1896 |
NA |
NA |
NA |
NA |
NA |
NA |
NA |
NA |
5 |
0.753424658 |
575 |
928 |
0.075744809 |
31.10135351 |
0.017834998 |
0.013439205 |
0.004110904 |
0.309529436 |
-0.227352118 |
-0.649760713 |
5 |
0.835616438 |
543 |
683 |
NA |
31.8797135 |
0.022026407 |
NA |
NA |
NA |
-0.11824099 |
-0.685754995 |
5 |
0.989041096 |
653 |
6803 |
0.06897661 |
33.27452404 |
0.042345092 |
0.00037037 |
0.004083942 |
0.291849159 |
0.07854869 |
-0.646449849 |
5 |
1.42739726 |
582 |
1229 |
0.070900994 |
31.31447234 |
0.019419985 |
0.000410947 |
0.007870202 |
0.58211336 |
-0.317151925 |
-0.704406397 |
5 |
1.906849315 |
308 |
8022 |
0.83638132 |
32.05157353 |
0.023276904 |
0.007828745 |
0.00736192 |
0.483504149 |
-0.165227933 |
-0.654871779 |
5 |
2.364383562 |
344 |
6489 |
0.987551553 |
32.26519443 |
0.037087242 |
0.005362904 |
0.012647952 |
0.847809328 |
0.284827546 |
-0.544443304 |
5 |
2.879452055 |
291 |
2852 |
0.423617759 |
31.84254336 |
0.020639913 |
0.001883393 |
0.015734042 |
1.239533864 |
-0.204547953 |
-0.709016857 |
5 |
3.301369863 |
180 |
3275 |
1.50909894 |
30.72423722 |
0.020621756 |
0.013333366 |
0.022116435 |
1.567827586 |
-0.25660189 |
-0.670602254 |
5 |
3.62739726 |
224 |
809 |
0.813276562 |
30.61352263 |
0.01548543 |
0.009316212 |
0.026738083 |
1.887868542 |
-0.463834858 |
-0.612809437 |
5 |
4.608219178 |
NA |
NA |
NA |
30.84334399 |
0.018411575 |
NA |
NA |
NA |
-0.283366156 |
-0.593886894 |
6 |
0.526027397 |
315 |
24721 |
0.511707487 |
31.38320433 |
0.018446474 |
0.002336586 |
0.003332664 |
0.159777215 |
-0.023768399 |
-0.544540502 |
6 |
1.189041096 |
364 |
67552 |
4.928474788 |
31.55282593 |
0.025527465 |
0.008079277 |
0.00778936 |
0.657991561 |
-0.024610666 |
-0.658401121 |
6 |
2.117808219 |
374 |
37108 |
1.119284472 |
31.49707466 |
0.019014375 |
0.00239226 |
0.005379747 |
0.438554345 |
-0.144879017 |
-0.665534902 |
6 |
3.032876712 |
275 |
79115 |
2.842810086 |
31.39724331 |
0.021176967 |
0.009626846 |
0.010890642 |
0.65656998 |
-0.03721762 |
-0.564936377 |
6 |
3.967123288 |
267 |
53101 |
2.688490269 |
31.26711719 |
0.017665401 |
0.018947888 |
0.013010371 |
0.807814382 |
-0.182680237 |
-0.560670045 |
6 |
4.890410959 |
159 |
52693 |
1.552643471 |
32.2578296 |
0.028918897 |
0.027907844 |
0.021818079 |
0.823247489 |
-0.058503308 |
-0.57974662 |
6 |
5.791780822 |
159 |
27492 |
2.298211764 |
32.48866906 |
0.033700188 |
0.027745711 |
0.01793108 |
0.729077709 |
-0.22541224 |
-0.386937004 |
6 |
6.731506849 |
103 |
30525 |
2.207475167 |
31.12833381 |
0.018608727 |
0.031240944 |
0.019463641 |
0.695570539 |
-0.387771958 |
-0.636854853 |
6 |
7.693150685 |
166 |
37537 |
NA |
32.19249926 |
0.027834685 |
NA |
NA |
NA |
-0.213171071 |
-0.467318014 |
6 |
8.553424658 |
151 |
72101 |
1.705444496 |
31.71038152 |
0.022279003 |
0.049153804 |
0.040276855 |
0.864631697 |
-0.305156594 |
-0.462049112 |
7 |
0.136986301 |
676 |
500000 |
0.293379715 |
32.09284542 |
0.010528102 |
0.000664597 |
0.000594011 |
0.003734733 |
-0.73101688 |
-1.059960824 |
7 |
0.410958904 |
1110 |
46498 |
0.230973239 |
31.53425013 |
0.011548783 |
0.004037112 |
0.000294304 |
0.014403802 |
0.010379746 |
-0.697697182 |
7 |
1.101369863 |
1082 |
4089 |
0.539997972 |
31.55667603 |
0.021379863 |
0.008956778 |
0.001603682 |
0.083714661 |
-0.096767668 |
-0.60761054 |
7 |
1.6 |
NA |
6623 |
0.358785212 |
31.9525837 |
0.024032882 |
0.0001237 |
0.006660407 |
0.532233893 |
-0.120563275 |
-0.571081618 |
7 |
2.115068493 |
780 |
5267 |
0.826987662 |
31.49488659 |
0.0213341 |
0.008264741 |
0.007266776 |
0.467884766 |
-0.299146919 |
-0.686100254 |
7 |
2.597260274 |
726 |
7738 |
1.036456061 |
32.55631428 |
0.027946659 |
0.00398767 |
0.011934059 |
0.794354039 |
-0.163490025 |
-0.611848886 |
7 |
2.994520548 |
792 |
6641 |
0.998088226 |
32.46887089 |
0.025324223 |
0.012248546 |
0.021305264 |
1.431453539 |
-0.280161049 |
-0.630913488 |
7 |
3.454794521 |
786 |
7451 |
1.59408391 |
32.76187696 |
0.030103769 |
0.009402638 |
0.029665085 |
2.153319618 |
-0.235574029 |
-0.791629479 |
7 |
5.161643836 |
711 |
19298 |
1.731935981 |
31.97444057 |
0.023730205 |
0.013092254 |
0.033196866 |
2.194643323 |
-0.255377968 |
-0.747155528 |
7 |
6.679452055 |
515 |
20282 |
1.311545677 |
31.81055511 |
0.023215218 |
0.015382226 |
0.039512522 |
2.561415001 |
-0.24591256 |
-0.717611453 |
8 |
0.197260274 |
655 |
17185 |
0.386217015 |
32.36461921 |
0.028354276 |
0.004605104 |
0.001272277 |
0.111644573 |
0.1150189 |
-0.496095644 |
8 |
0.536986301 |
664 |
15093 |
0.880178289 |
33.00190024 |
0.035544616 |
0.004445306 |
0.009946749 |
0.718566603 |
0.005348092 |
-0.595519498 |
8 |
1.205479452 |
513 |
18421 |
1.092483752 |
33.16803854 |
0.047079004 |
0.000116299 |
0.015733547 |
1.059029654 |
0.111861614 |
-0.554446336 |
8 |
1.652054795 |
689 |
15697 |
0.59061237 |
33.49530454 |
0.043252021 |
0.013560605 |
0.018393672 |
1.299316641 |
-0.081099275 |
-0.5982362 |
8 |
2.112328767 |
439 |
6950 |
0.736573403 |
32.15648506 |
0.03515476 |
0.024591851 |
0.020361374 |
0.859261301 |
-0.201378317 |
-0.66762773 |
8 |
2.632876712 |
575 |
10120 |
0.852615333 |
31.80313185 |
0.033938679 |
0.023003459 |
0.022465792 |
1.09338332 |
-0.135891276 |
-0.541665281 |
8 |
3.046575342 |
529 |
9577 |
0.069243295 |
32.90410288 |
0.036030895 |
0.000391812 |
0.026407657 |
2.024548482 |
-0.113463966 |
-0.676594823 |
8 |
3.284931507 |
363 |
12231 |
0.0727297 |
32.99070303 |
0.037487924 |
0.000393498 |
0.033878959 |
2.629304762 |
-0.105038607 |
-0.61844981 |
8 |
3.723287671 |
418 |
14672 |
0.547998221 |
32.49996792 |
0.037083103 |
0.012681685 |
0.02472727 |
1.789068474 |
-0.103734287 |
-0.658924893 |
8 |
4.504109589 |
321 |
44503 |
1.231625208 |
30.5739057 |
0.024226973 |
0.007755678 |
0.032789105 |
2.333146846 |
-0.534094142 |
-0.866500498 |
9 |
0.216438356 |
574 |
2219 |
0.059591526 |
31.14313914 |
0.020094005 |
0.00032336 |
0.000287384 |
0.017517426 |
-0.214518501 |
-0.693673144 |
9 |
0.517808219 |
579 |
4375 |
0.069738129 |
30.64588308 |
0.019931541 |
0.01367974 |
0.007749255 |
0.569098678 |
-0.219761022 |
-0.530308493 |
9 |
1.230136986 |
503 |
5303 |
0.332578806 |
31.9011365 |
0.025078578 |
0.002552625 |
0.001577746 |
0.32337459 |
-0.155923209 |
-0.561981615 |
9 |
1.882191781 |
484 |
10119 |
0.509147706 |
33.06030842 |
0.039847582 |
0.023871073 |
0.001861089 |
0.084110608 |
-0.036450903 |
-0.626619999 |
9 |
2.131506849 |
519 |
28644 |
1.29450848 |
31.65403552 |
0.022910219 |
0.026081953 |
0.011031233 |
0.461718894 |
-0.152676729 |
-0.696467935 |
9 |
2.361643836 |
465 |
15767 |
0.072311027 |
32.99783229 |
0.036245786 |
0.013769473 |
0.011545796 |
0.847036098 |
-0.062917464 |
-0.636882534 |
9 |
2.8 |
460 |
26028 |
1.059759766 |
30.79606402 |
0.016620032 |
0.029650833 |
0.00901087 |
0.423789112 |
-0.385301148 |
-0.779705556 |
9 |
3.147945205 |
504 |
26391 |
1.261654627 |
30.86873656 |
0.016058172 |
0.025817715 |
0.00676213 |
0.315031046 |
-0.418106848 |
-0.808590829 |
9 |
3.509589041 |
423 |
22056 |
0.894860028 |
31.40652627 |
0.019681959 |
0.007562811 |
0.009155456 |
0.784317479 |
-0.363606965 |
-0.744407425 |
9 |
3.739726027 |
474 |
18817 |
0.45677677 |
30.87509539 |
0.017142556 |
0.025657205 |
0.025437307 |
1.029721532 |
-0.440396787 |
-0.799926598 |
10 |
0.065753425 |
803 |
41 |
NA |
30.4010054 |
0.023473996 |
NA |
NA |
NA |
-0.179140771 |
-0.564594161 |
10 |
0.304109589 |
1115 |
40 |
NA |
32.61520026 |
0.04805921 |
NA |
NA |
NA |
-0.05777739 |
-0.597351036 |
10 |
0.835616438 |
1009 |
40 |
NA |
32.78095787 |
0.03781498 |
NA |
NA |
NA |
-0.038566237 |
-0.580157506 |
10 |
1.065753425 |
1048 |
40 |
NA |
33.10481989 |
0.04123612 |
NA |
NA |
NA |
0.018570575 |
-0.610744361 |
10 |
1.523287671 |
959 |
40 |
NA |
30.14418838 |
0.014330317 |
NA |
NA |
NA |
-0.288326454 |
-0.596232338 |
10 |
1.98630137 |
944 |
40 |
NA |
33.38391243 |
0.058418278 |
NA |
NA |
NA |
0.036581985 |
-0.62942434 |
10 |
2.446575342 |
894 |
51 |
NA |
30.4308189 |
0.025725826 |
NA |
NA |
NA |
-0.030031647 |
-0.588650623 |
10 |
2.906849315 |
840 |
74 |
NA |
30.22814509 |
0.027746901 |
NA |
NA |
NA |
0.068284531 |
-0.520502398 |
10 |
3.367123288 |
1013 |
2977 |
0.058871495 |
29.67158476 |
0.035142618 |
0.000353231 |
0.000266206 |
0.00261076 |
0.578332896 |
-0.247450585 |
10 |
3.82739726 |
859 |
6312 |
0.291702847 |
30.13042032 |
0.025710872 |
0.000152282 |
0.006274879 |
0.472162659 |
-0.148697094 |
-0.568715804 |