-
1
-
-
0030070991
-
Prognosis in HIV-1 infection predicted by the quantity of virus in plasma
-
Mellors JW, Rinaldo CR Jr, Gupta P, White RM, Todd JA, et al. (1996) Prognosis in HIV-1 infection predicted by the quantity of virus in plasma. Science 272: 1167-1170.
-
(1996)
Science
, vol.272
, pp. 1167-1170
-
-
Mellors, J.W.1
Rinaldo Jr., C.R.2
Gupta, P.3
White, R.M.4
Todd, J.A.5
-
2
-
-
0031790507
-
Virology and immunology of acute HIV type 1 infection
-
Daar ES, (1998) Virology and immunology of acute HIV type 1 infection. AIDS Res Hum Retroviruses 14 (Suppl 3): S229-234.
-
(1998)
AIDS Res Hum Retroviruses
, vol.14
, Issue.SUPPL. 3
-
-
Daar, E.S.1
-
3
-
-
0034727073
-
Immune control of HIV-1 after early treatment of acute infection
-
Rosenberg ES, Altfeld M, Poon SH, Phillips MN, Wilkes BM, et al. (2000) Immune control of HIV-1 after early treatment of acute infection. Nature 407: 523-526.
-
(2000)
Nature
, vol.407
, pp. 523-526
-
-
Rosenberg, E.S.1
Altfeld, M.2
Poon, S.H.3
Phillips, M.N.4
Wilkes, B.M.5
-
4
-
-
0035169609
-
Increased turnover of T lymphocytes in HIV-1 infection and its reduction by antiretroviral therapy
-
Mohri H, Perelson AS, Tung K, Ribeiro RM, Ramratnam B, et al. (2001) Increased turnover of T lymphocytes in HIV-1 infection and its reduction by antiretroviral therapy. J Exp Med 194: 1277-1287.
-
(2001)
J Exp Med
, vol.194
, pp. 1277-1287
-
-
Mohri, H.1
Perelson, A.S.2
Tung, K.3
Ribeiro, R.M.4
Ramratnam, B.5
-
5
-
-
0030913366
-
Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection
-
Chun TW, Carruth L, Finzi D, Shen X, DiGiuseppe JA, et al. (1997) Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection. Nature 387: 183-188.
-
(1997)
Nature
, vol.387
, pp. 183-188
-
-
Chun, T.W.1
Carruth, L.2
Finzi, D.3
Shen, X.4
DiGiuseppe, J.A.5
-
6
-
-
33744457664
-
Epidemiology of HIV/AIDS-United States, 1981-2005
-
CDC
-
CDC (2006) Epidemiology of HIV/AIDS-United States, 1981-2005. MMWR Morb Mortal Wkly Rep 55: 589-592.
-
(2006)
MMWR Morb Mortal Wkly Rep
, vol.55
, pp. 589-592
-
-
-
7
-
-
2642709177
-
Declining morbidity and mortality among patients with advanced human immunodeficiency virus infection. HIV Outpatient Study Investigators
-
Palella FJ Jr, Delaney KM, Moorman AC, Loveless MO, Fuhrer J, et al. (1998) Declining morbidity and mortality among patients with advanced human immunodeficiency virus infection. HIV Outpatient Study Investigators. N Engl J Med 338: 853-860.
-
(1998)
N Engl J Med
, vol.338
, pp. 853-860
-
-
Palella Jr., F.J.1
Delaney, K.M.2
Moorman, A.C.3
Loveless, M.O.4
Fuhrer, J.5
-
8
-
-
13144279356
-
Kinetics of CD4+ T cell repopulation of lymphoid tissues after treatment of HIV-1 infection
-
Zhang ZQ, Notermans DW, Sedgewick G, Cavert W, Wietgrefe S, et al. (1998) Kinetics of CD4+ T cell repopulation of lymphoid tissues after treatment of HIV-1 infection. Proc Natl Acad Sci U S A 95: 1154-1159.
-
(1998)
Proc Natl Acad Sci U S A
, vol.95
, pp. 1154-1159
-
-
Zhang, Z.Q.1
Notermans, D.W.2
Sedgewick, G.3
Cavert, W.4
Wietgrefe, S.5
-
9
-
-
0030868897
-
Positive effects of combined antiretroviral therapy on CD4+ T cell homeostasis and function in advanced HIV disease
-
Autran B, Carcelain G, Li TS, Blanc C, Mathez D, et al. (1997) Positive effects of combined antiretroviral therapy on CD4+ T cell homeostasis and function in advanced HIV disease. Science 277: 112-116.
-
(1997)
Science
, vol.277
, pp. 112-116
-
-
Autran, B.1
Carcelain, G.2
Li, T.S.3
Blanc, C.4
Mathez, D.5
-
10
-
-
0031882434
-
Biphasic kinetics of peripheral blood T cells after triple combination therapy in HIV-1 infection: a composite of redistribution and proliferation
-
Pakker NG, Notermans DW, de Boer RJ, Roos MT, de Wolf F, et al. (1998) Biphasic kinetics of peripheral blood T cells after triple combination therapy in HIV-1 infection: a composite of redistribution and proliferation. Nat Med 4: 208-214.
-
(1998)
Nat Med
, vol.4
, pp. 208-214
-
-
Pakker, N.G.1
Notermans, D.W.2
de Boer, R.J.3
Roos, M.T.4
de Wolf, F.5
-
11
-
-
0030730288
-
Reduction of HIV-1 in blood and lymph nodes following potent antiretroviral therapy and the virologic correlates of treatment failure
-
Wong JK, Gunthard HF, Havlir DV, Zhang ZQ, Haase AT, et al. (1997) Reduction of HIV-1 in blood and lymph nodes following potent antiretroviral therapy and the virologic correlates of treatment failure. Proc Natl Acad Sci U S A 94: 12574-12579.
-
(1997)
Proc Natl Acad Sci U S A
, vol.94
, pp. 12574-12579
-
-
Wong, J.K.1
Gunthard, H.F.2
Havlir, D.V.3
Zhang, Z.Q.4
Haase, A.T.5
-
12
-
-
14444273439
-
Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy
-
Finzi D, Hermankova M, Pierson T, Carruth LM, Buck C, et al. (1997) Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy. Science 278: 1295-1300.
-
(1997)
Science
, vol.278
, pp. 1295-1300
-
-
Finzi, D.1
Hermankova, M.2
Pierson, T.3
Carruth, L.M.4
Buck, C.5
-
13
-
-
0030712305
-
Recovery of replication-competent HIV despite prolonged suppression of plasma viremia
-
Wong JK, Hezareh M, Gunthard HF, Havlir DV, Ignacio CC, et al. (1997) Recovery of replication-competent HIV despite prolonged suppression of plasma viremia. Science 278: 1291-1295.
-
(1997)
Science
, vol.278
, pp. 1291-1295
-
-
Wong, J.K.1
Hezareh, M.2
Gunthard, H.F.3
Havlir, D.V.4
Ignacio, C.C.5
-
14
-
-
0032490145
-
Antiretroviral therapy for HIV infection: promises and problems
-
Volberding PA, Deeks SG, (1998) Antiretroviral therapy for HIV infection: promises and problems. JAMA 279: 1343-1344.
-
(1998)
JAMA
, vol.279
, pp. 1343-1344
-
-
Volberding, P.A.1
Deeks, S.G.2
-
15
-
-
0036720475
-
Discontinuation of antiretroviral therapy commenced early during the course of human immunodeficiency virus type 1 infection, with or without adjunctive vaccination
-
Markowitz M, Jin X, Hurley A, Simon V, Ramratnam B, et al. (2002) Discontinuation of antiretroviral therapy commenced early during the course of human immunodeficiency virus type 1 infection, with or without adjunctive vaccination. J Infect Dis 186: 634-643.
-
(2002)
J Infect Dis
, vol.186
, pp. 634-643
-
-
Markowitz, M.1
Jin, X.2
Hurley, A.3
Simon, V.4
Ramratnam, B.5
-
16
-
-
0032953920
-
Latent infection of CD4+ T cells provides a mechanism for lifelong persistence of HIV-1, even in patients on effective combination therapy
-
Finzi D, Blankson J, Siliciano JD, Margolick JB, Chadwick K, et al. (1999) Latent infection of CD4+ T cells provides a mechanism for lifelong persistence of HIV-1, even in patients on effective combination therapy. Nat Med 5: 512-517.
-
(1999)
Nat Med
, vol.5
, pp. 512-517
-
-
Finzi, D.1
Blankson, J.2
Siliciano, J.D.3
Margolick, J.B.4
Chadwick, K.5
-
17
-
-
0032490570
-
Induction of HIV-1 replication in latently infected CD4+ T cells using a combination of cytokines
-
Chun TW, Engel D, Mizell SB, Ehler LA, Fauci AS, (1998) Induction of HIV-1 replication in latently infected CD4+ T cells using a combination of cytokines. J Exp Med 188: 83-91.
-
(1998)
J Exp Med
, vol.188
, pp. 83-91
-
-
Chun, T.W.1
Engel, D.2
Mizell, S.B.3
Ehler, L.A.4
Fauci, A.S.5
-
18
-
-
0038316325
-
Anatomical basis of tolerance and immunity to intestinal antigens
-
Mowat AM, (2003) Anatomical basis of tolerance and immunity to intestinal antigens. Nat Rev Immunol 3: 331-341.
-
(2003)
Nat Rev Immunol
, vol.3
, pp. 331-341
-
-
Mowat, A.M.1
-
19
-
-
0031278410
-
Activation and migration of CD8 T cells in the intestinal mucosa
-
Kim SK, Reed DS, Heath WR, Carbone F, Lefrancois L, (1997) Activation and migration of CD8 T cells in the intestinal mucosa. J Immunol 159: 4295-4306.
-
(1997)
J Immunol
, vol.159
, pp. 4295-4306
-
-
Kim, S.K.1
Reed, D.S.2
Heath, W.R.3
Carbone, F.4
Lefrancois, L.5
-
20
-
-
0026686561
-
T cell differentiation antigens on lymphocytes in the human intestinal lamina propria
-
Schieferdecker HL, Ullrich R, Hirseland H, Zeitz M, (1992) T cell differentiation antigens on lymphocytes in the human intestinal lamina propria. J Immunol 149: 2816-2822.
-
(1992)
J Immunol
, vol.149
, pp. 2816-2822
-
-
Schieferdecker, H.L.1
Ullrich, R.2
Hirseland, H.3
Zeitz, M.4
-
21
-
-
0032540418
-
Gastrointestinal tract as a major site of CD4+ T cell depletion and viral replication in SIV infection
-
Veazey RS, DeMaria M, Chalifoux LV, Shvetz DE, Pauley DR, et al. (1998) Gastrointestinal tract as a major site of CD4+ T cell depletion and viral replication in SIV infection. Science 280: 427-431.
-
(1998)
Science
, vol.280
, pp. 427-431
-
-
Veazey, R.S.1
DeMaria, M.2
Chalifoux, L.V.3
Shvetz, D.E.4
Pauley, D.R.5
-
22
-
-
0031925896
-
Gastrointestinal T lymphocytes retain high potential for cytokine responses but have severe CD4(+) T-cell depletion at all stages of simian immunodeficiency virus infection compared to peripheral lymphocytes
-
Smit-McBride Z, Mattapallil JJ, McChesney M, Ferrick D, Dandekar S, (1998) Gastrointestinal T lymphocytes retain high potential for cytokine responses but have severe CD4(+) T-cell depletion at all stages of simian immunodeficiency virus infection compared to peripheral lymphocytes. J Virol 72: 6646-6656.
-
(1998)
J Virol
, vol.72
, pp. 6646-6656
-
-
Smit-McBride, Z.1
Mattapallil, J.J.2
McChesney, M.3
Ferrick, D.4
Dandekar, S.5
-
23
-
-
0033617547
-
Distinct pathogenic sequela in rhesus macaques infected with CCR5 or CXCR4 utilizing SHIVs
-
Harouse JM, Gettie A, Tan RC, Blanchard J, Cheng-Mayer C, (1999) Distinct pathogenic sequela in rhesus macaques infected with CCR5 or CXCR4 utilizing SHIVs. Science 284: 816-819.
-
(1999)
Science
, vol.284
, pp. 816-819
-
-
Harouse, J.M.1
Gettie, A.2
Tan, R.C.3
Blanchard, J.4
Cheng-Mayer, C.5
-
24
-
-
17844374605
-
Massive infection and loss of memory CD4+ T cells in multiple tissues during acute SIV infection
-
Mattapallil JJ, Douek DC, Hill B, Nishimura Y, Martin M, et al. (2005) Massive infection and loss of memory CD4+ T cells in multiple tissues during acute SIV infection. Nature 434: 1093-1097.
-
(2005)
Nature
, vol.434
, pp. 1093-1097
-
-
Mattapallil, J.J.1
Douek, D.C.2
Hill, B.3
Nishimura, Y.4
Martin, M.5
-
25
-
-
0034469552
-
Dynamics of CCR5 expression by CD4(+) T cells in lymphoid tissues during simian immunodeficiency virus infection
-
Veazey RS, Mansfield KG, Tham IC, Carville AC, Shvetz DE, et al. (2000) Dynamics of CCR5 expression by CD4(+) T cells in lymphoid tissues during simian immunodeficiency virus infection. J Virol 74: 11001-11007.
-
(2000)
J Virol
, vol.74
, pp. 11001-11007
-
-
Veazey, R.S.1
Mansfield, K.G.2
Tham, I.C.3
Carville, A.C.4
Shvetz, D.E.5
-
26
-
-
0023176085
-
An inducible transcription factor activates expression of human immunodeficiency virus in T cells
-
Nabel G, Baltimore D, (1987) An inducible transcription factor activates expression of human immunodeficiency virus in T cells. Nature 326: 711-713.
-
(1987)
Nature
, vol.326
, pp. 711-713
-
-
Nabel, G.1
Baltimore, D.2
-
27
-
-
0034888099
-
A preponderance of CCR5(+) CXCR4(+) mononuclear cells enhances gastrointestinal mucosal susceptibility to human immunodeficiency virus type 1 infection
-
Poles MA, Elliott J, Taing P, Anton PA, Chen IS, (2001) A preponderance of CCR5(+) CXCR4(+) mononuclear cells enhances gastrointestinal mucosal susceptibility to human immunodeficiency virus type 1 infection. J Virol 75: 8390-8399.
-
(2001)
J Virol
, vol.75
, pp. 8390-8399
-
-
Poles, M.A.1
Elliott, J.2
Taing, P.3
Anton, P.A.4
Chen, I.S.5
-
28
-
-
0033827042
-
Enhanced levels of functional HIV-1 co-receptors on human mucosal T cells demonstrated using intestinal biopsy tissue
-
Anton PA, Elliott J, Poles MA, McGowan IM, Matud J, et al. (2000) Enhanced levels of functional HIV-1 co-receptors on human mucosal T cells demonstrated using intestinal biopsy tissue. AIDS 14: 1761-1765.
-
(2000)
AIDS
, vol.14
, pp. 1761-1765
-
-
Anton, P.A.1
Elliott, J.2
Poles, M.A.3
McGowan, I.M.4
Matud, J.5
-
29
-
-
4644342929
-
CD4+ T cell depletion during all stages of HIV disease occurs predominantly in the gastrointestinal tract
-
Brenchley JM, Schacker TW, Ruff LE, Price DA, Taylor JH, et al. (2004) CD4+ T cell depletion during all stages of HIV disease occurs predominantly in the gastrointestinal tract. J Exp Med 200: 749-759.
-
(2004)
J Exp Med
, vol.200
, pp. 749-759
-
-
Brenchley, J.M.1
Schacker, T.W.2
Ruff, L.E.3
Price, D.A.4
Taylor, J.H.5
-
30
-
-
4644289983
-
Primary HIV-1 infection is associated with preferential depletion of CD4+ T lymphocytes from effector sites in the gastrointestinal tract
-
Mehandru S, Poles MA, Tenner-Racz K, Horowitz A, Hurley A, et al. (2004) Primary HIV-1 infection is associated with preferential depletion of CD4+ T lymphocytes from effector sites in the gastrointestinal tract. J Exp Med 200: 761-770.
-
(2004)
J Exp Med
, vol.200
, pp. 761-770
-
-
Mehandru, S.1
Poles, M.A.2
Tenner-Racz, K.3
Horowitz, A.4
Hurley, A.5
-
31
-
-
0142092389
-
Severe CD4+ T-cell depletion in gut lymphoid tissue during primary human immunodeficiency virus type 1 infection and substantial delay in restoration following highly active antiretroviral therapy
-
Guadalupe M, Reay E, Sankaran S, Prindiville T, Flamm J, et al. (2003) Severe CD4+ T-cell depletion in gut lymphoid tissue during primary human immunodeficiency virus type 1 infection and substantial delay in restoration following highly active antiretroviral therapy. J Virol 77: 11708-11717.
-
(2003)
J Virol
, vol.77
, pp. 11708-11717
-
-
Guadalupe, M.1
Reay, E.2
Sankaran, S.3
Prindiville, T.4
Flamm, J.5
-
32
-
-
33845904393
-
Lack of mucosal immune reconstitution during prolonged treatment of acute and early HIV-1 infection
-
Mehandru S, Poles MA, Tenner-Racz K, Jean-Pierre P, Manuelli V, et al. (2006) Lack of mucosal immune reconstitution during prolonged treatment of acute and early HIV-1 infection. PLoS Med 3: e484.
-
(2006)
PLoS Med
, vol.3
-
-
Mehandru, S.1
Poles, M.A.2
Tenner-Racz, K.3
Jean-Pierre, P.4
Manuelli, V.5
-
33
-
-
33846034454
-
Mechanisms of gastrointestinal CD4+ T-cell depletion during acute and early human immunodeficiency virus type 1 infection
-
Mehandru S, Poles MA, Tenner-Racz K, Manuelli V, Jean-Pierre P, et al. (2007) Mechanisms of gastrointestinal CD4+ T-cell depletion during acute and early human immunodeficiency virus type 1 infection. J Virol 81: 599-612.
-
(2007)
J Virol
, vol.81
, pp. 599-612
-
-
Mehandru, S.1
Poles, M.A.2
Tenner-Racz, K.3
Manuelli, V.4
Jean-Pierre, P.5
-
34
-
-
0032555117
-
Early establishment of a pool of latently infected, resting CD4(+) T cells during primary HIV-1 infection
-
Chun TW, Engel D, Berrey MM, Shea T, Corey L, et al. (1998) Early establishment of a pool of latently infected, resting CD4(+) T cells during primary HIV-1 infection. Proc Natl Acad Sci U S A 95: 8869-8873.
-
(1998)
Proc Natl Acad Sci U S A
, vol.95
, pp. 8869-8873
-
-
Chun, T.W.1
Engel, D.2
Berrey, M.M.3
Shea, T.4
Corey, L.5
-
35
-
-
10744228049
-
New real-time reverse transcriptase-initiated PCR assay with single-copy sensitivity for human immunodeficiency virus type 1 RNA in plasma
-
Palmer S, Wiegand AP, Maldarelli F, Bazmi H, Mican JM, et al. (2003) New real-time reverse transcriptase-initiated PCR assay with single-copy sensitivity for human immunodeficiency virus type 1 RNA in plasma. J Clin Microbiol 41: 4531-4536.
-
(2003)
J Clin Microbiol
, vol.41
, pp. 4531-4536
-
-
Palmer, S.1
Wiegand, A.P.2
Maldarelli, F.3
Bazmi, H.4
Mican, J.M.5
-
36
-
-
9144265028
-
Intensification of antiretroviral therapy accelerates the decay of the HIV-1 latent reservoir and decreases, but does not eliminate, ongoing virus replication
-
Ramratnam B, Ribeiro R, He T, Chung C, Simon V, et al. (2004) Intensification of antiretroviral therapy accelerates the decay of the HIV-1 latent reservoir and decreases, but does not eliminate, ongoing virus replication. J Acquir Immune Defic Syndr 35: 33-37.
-
(2004)
J Acquir Immune Defic Syndr
, vol.35
, pp. 33-37
-
-
Ramratnam, B.1
Ribeiro, R.2
He, T.3
Chung, C.4
Simon, V.5
-
37
-
-
0033031005
-
Use of real-time PCR and molecular beacons to detect virus replication in human immunodeficiency virus type 1-infected individuals on prolonged effective antiretroviral therapy
-
Lewin SR, Vesanen M, Kostrikis L, Hurley A, Duran M, et al. (1999) Use of real-time PCR and molecular beacons to detect virus replication in human immunodeficiency virus type 1-infected individuals on prolonged effective antiretroviral therapy. J Virol 73: 6099-6103.
-
(1999)
J Virol
, vol.73
, pp. 6099-6103
-
-
Lewin, S.R.1
Vesanen, M.2
Kostrikis, L.3
Hurley, A.4
Duran, M.5
-
38
-
-
27644524761
-
HIV-infected individuals receiving effective antiviral therapy for extended periods of time continually replenish their viral reservoir
-
Chun TW, Nickle DC, Justement JS, Large D, Semerjian A, et al. (2005) HIV-infected individuals receiving effective antiviral therapy for extended periods of time continually replenish their viral reservoir. J Clin Invest 115: 3250-3255.
-
(2005)
J Clin Invest
, vol.115
, pp. 3250-3255
-
-
Chun, T.W.1
Nickle, D.C.2
Justement, J.S.3
Large, D.4
Semerjian, A.5
-
39
-
-
0033966504
-
Persistence of episomal HIV-1 infection intermediates in patients on highly active anti-retroviral therapy
-
Sharkey ME, Teo I, Greenough T, Sharova N, Luzuriaga K, et al. (2000) Persistence of episomal HIV-1 infection intermediates in patients on highly active anti-retroviral therapy. Nat Med 6: 76-81.
-
(2000)
Nat Med
, vol.6
, pp. 76-81
-
-
Sharkey, M.E.1
Teo, I.2
Greenough, T.3
Sharova, N.4
Luzuriaga, K.5
-
40
-
-
0033609373
-
Quantifying residual HIV-1 replication in patients receiving combination antiretroviral therapy
-
Zhang L, Ramratnam B, Tenner-Racz K, He Y, Vesanen M, et al. (1999) Quantifying residual HIV-1 replication in patients receiving combination antiretroviral therapy. N Engl J Med 340: 1605-1613.
-
(1999)
N Engl J Med
, vol.340
, pp. 1605-1613
-
-
Zhang, L.1
Ramratnam, B.2
Tenner-Racz, K.3
He, Y.4
Vesanen, M.5
-
41
-
-
77950537810
-
HIV-1 replication and immune dynamics are affected by raltegravir intensification of HAART-suppressed subjects
-
Buzon MJ, Massanella M, Llibre JM, Esteve A, Dahl V, et al. (2010) HIV-1 replication and immune dynamics are affected by raltegravir intensification of HAART-suppressed subjects. Nat Med 16: 460-465.
-
(2010)
Nat Med
, vol.16
, pp. 460-465
-
-
Buzon, M.J.1
Massanella, M.2
Llibre, J.M.3
Esteve, A.4
Dahl, V.5
-
42
-
-
10744231165
-
CD38 expression on CD8 T lymphocytes as a marker of residual virus replication in chronically HIV-infected patients receiving antiretroviral therapy
-
Benito JM, Lopez M, Lozano S, Martinez P, Gonzalez-Lahoz J, et al. (2004) CD38 expression on CD8 T lymphocytes as a marker of residual virus replication in chronically HIV-infected patients receiving antiretroviral therapy. AIDS Res Hum Retroviruses 20: 227-233.
-
(2004)
AIDS Res Hum Retroviruses
, vol.20
, pp. 227-233
-
-
Benito, J.M.1
Lopez, M.2
Lozano, S.3
Martinez, P.4
Gonzalez-Lahoz, J.5
-
43
-
-
2642704250
-
Human immunodeficiency virus replication and genotypic resistance in blood and lymph nodes after a year of potent antiretroviral therapy
-
Gunthard HF, Wong JK, Ignacio CC, Guatelli JC, Riggs NL, et al. (1998) Human immunodeficiency virus replication and genotypic resistance in blood and lymph nodes after a year of potent antiretroviral therapy. J Virol 72: 2422-2428.
-
(1998)
J Virol
, vol.72
, pp. 2422-2428
-
-
Gunthard, H.F.1
Wong, J.K.2
Ignacio, C.C.3
Guatelli, J.C.4
Riggs, N.L.5
-
44
-
-
2542510364
-
Human immunodeficiency virus type 1 genetic evolution in patients with prolonged suppression of plasma viremia
-
Martinez MA, Cabana M, Ibanez A, Clotet B, Arno A, et al. (1999) Human immunodeficiency virus type 1 genetic evolution in patients with prolonged suppression of plasma viremia. Virology 256: 180-187.
-
(1999)
Virology
, vol.256
, pp. 180-187
-
-
Martinez, M.A.1
Cabana, M.2
Ibanez, A.3
Clotet, B.4
Arno, A.5
-
45
-
-
70349296826
-
Identification of ongoing human immunodeficiency virus type 1 (HIV-1) replication in residual viremia during recombinant HIV-1 poxvirus immunizations in patients with clinically undetectable viral loads on durable suppressive highly active antiretroviral therapy
-
Shiu C, Cunningham CK, Greenough T, Muresan P, Sanchez-Merino V, et al. (2009) Identification of ongoing human immunodeficiency virus type 1 (HIV-1) replication in residual viremia during recombinant HIV-1 poxvirus immunizations in patients with clinically undetectable viral loads on durable suppressive highly active antiretroviral therapy. J Virol 83: 9731-9742.
-
(2009)
J Virol
, vol.83
, pp. 9731-9742
-
-
Shiu, C.1
Cunningham, C.K.2
Greenough, T.3
Muresan, P.4
Sanchez-Merino, V.5
-
46
-
-
0242629783
-
Evolution of envelope sequences of human immunodeficiency virus type 1 in cellular reservoirs in the setting of potent antiviral therapy
-
Gunthard HF, Frost SD, Leigh-Brown AJ, Ignacio CC, Kee K, et al. (1999) Evolution of envelope sequences of human immunodeficiency virus type 1 in cellular reservoirs in the setting of potent antiviral therapy. J Virol 73: 9404-9412.
-
(1999)
J Virol
, vol.73
, pp. 9404-9412
-
-
Gunthard, H.F.1
Frost, S.D.2
Leigh-Brown, A.J.3
Ignacio, C.C.4
Kee, K.5
-
47
-
-
33745245733
-
Residual human immunodeficiency virus type 1 viremia in some patients on antiretroviral therapy is dominated by a small number of invariant clones rarely found in circulating CD4+ T cells
-
Bailey JR, Sedaghat AR, Kieffer T, Brennan T, Lee PK, et al. (2006) Residual human immunodeficiency virus type 1 viremia in some patients on antiretroviral therapy is dominated by a small number of invariant clones rarely found in circulating CD4+ T cells. J Virol 80: 6441-6457.
-
(2006)
J Virol
, vol.80
, pp. 6441-6457
-
-
Bailey, J.R.1
Sedaghat, A.R.2
Kieffer, T.3
Brennan, T.4
Lee, P.K.5
-
48
-
-
67249121143
-
Treatment intensification does not reduce residual HIV-1 viremia in patients on highly active antiretroviral therapy
-
Dinoso JB, Kim SY, Wiegand AM, Palmer SE, Gange SJ, et al. (2009) Treatment intensification does not reduce residual HIV-1 viremia in patients on highly active antiretroviral therapy. Proc Natl Acad Sci U S A 106: 9403-9408.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 9403-9408
-
-
Dinoso, J.B.1
Kim, S.Y.2
Wiegand, A.M.3
Palmer, S.E.4
Gange, S.J.5
-
49
-
-
2142829435
-
Genotypic analysis of HIV-1 drug resistance at the limit of detection: virus production without evolution in treated adults with undetectable HIV loads
-
Kieffer TL, Finucane MM, Nettles RE, Quinn TC, Broman KW, et al. (2004) Genotypic analysis of HIV-1 drug resistance at the limit of detection: virus production without evolution in treated adults with undetectable HIV loads. J Infect Dis 189: 1452-1465.
-
(2004)
J Infect Dis
, vol.189
, pp. 1452-1465
-
-
Kieffer, T.L.1
Finucane, M.M.2
Nettles, R.E.3
Quinn, T.C.4
Broman, K.W.5
-
50
-
-
46049096099
-
Viral reservoirs, residual viremia, and the potential of highly active antiretroviral therapy to eradicate HIV infection
-
Shen L, Siliciano RF, (2008) Viral reservoirs, residual viremia, and the potential of highly active antiretroviral therapy to eradicate HIV infection. J Allergy Clin Immunol 122: 22-28.
-
(2008)
J Allergy Clin Immunol
, vol.122
, pp. 22-28
-
-
Shen, L.1
Siliciano, R.F.2
-
51
-
-
34548424552
-
Limits on replenishment of the resting CD4+ T cell reservoir for HIV in patients on HAART
-
Sedaghat AR, Siliciano JD, Brennan TP, Wilke CO, Siliciano RF, (2007) Limits on replenishment of the resting CD4+ T cell reservoir for HIV in patients on HAART. PLoS Pathog 3: e122.
-
(2007)
PLoS Pathog
, vol.3
-
-
Sedaghat, A.R.1
Siliciano, J.D.2
Brennan, T.P.3
Wilke, C.O.4
Siliciano, R.F.5
-
52
-
-
39749112383
-
Low-level HIV-1 replication and the dynamics of the resting CD4+ T cell reservoir for HIV-1 in the setting of HAART
-
Sedaghat AR, Siliciano RF, Wilke CO, (2008) Low-level HIV-1 replication and the dynamics of the resting CD4+ T cell reservoir for HIV-1 in the setting of HAART. BMC Infect Dis 8: 2.
-
(2008)
BMC Infect Dis
, vol.8
, pp. 2
-
-
Sedaghat, A.R.1
Siliciano, R.F.2
Wilke, C.O.3
-
53
-
-
55949083820
-
HIV rebounds from latently infected cells, rather than from continuing low-level replication
-
Joos B, Fischer M, Kuster H, Pillai SK, Wong JK, et al. (2008) HIV rebounds from latently infected cells, rather than from continuing low-level replication. Proc Natl Acad Sci U S A 105: 16725-16730.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 16725-16730
-
-
Joos, B.1
Fischer, M.2
Kuster, H.3
Pillai, S.K.4
Wong, J.K.5
-
54
-
-
80052395837
-
Cell-to-cell spread of HIV permits ongoing replication despite antiretroviral therapy
-
Sigal A, Kim JT, Balazs AB, Dekel E, Mayo A, et al. (2011) Cell-to-cell spread of HIV permits ongoing replication despite antiretroviral therapy. Nature 477: 95-98.
-
(2011)
Nature
, vol.477
, pp. 95-98
-
-
Sigal, A.1
Kim, J.T.2
Balazs, A.B.3
Dekel, E.4
Mayo, A.5
-
55
-
-
19944428265
-
Multiple, linked human immunodeficiency virus type 1 drug resistance mutations in treatment-experienced patients are missed by standard genotype analysis
-
Palmer S, Kearney M, Maldarelli F, Halvas EK, Bixby CJ, et al. (2005) Multiple, linked human immunodeficiency virus type 1 drug resistance mutations in treatment-experienced patients are missed by standard genotype analysis. J Clin Microbiol 43: 406-413.
-
(2005)
J Clin Microbiol
, vol.43
, pp. 406-413
-
-
Palmer, S.1
Kearney, M.2
Maldarelli, F.3
Halvas, E.K.4
Bixby, C.J.5
-
56
-
-
4644245699
-
Pervasive genomic recombination of HIV-1 in vivo
-
Shriner D, Rodrigo AG, Nickle DC, Mullins JI, (2004) Pervasive genomic recombination of HIV-1 in vivo. Genetics 167: 1573-1583.
-
(2004)
Genetics
, vol.167
, pp. 1573-1583
-
-
Shriner, D.1
Rodrigo, A.G.2
Nickle, D.C.3
Mullins, J.I.4
-
57
-
-
0025253821
-
Analysis of sequence diversity in hypervariable regions of the external glycoprotein of human immunodeficiency virus type 1
-
Simmonds P, Balfe P, Ludlam CA, Bishop JO, Brown AJ, (1990) Analysis of sequence diversity in hypervariable regions of the external glycoprotein of human immunodeficiency virus type 1. J Virol 64: 5840-5850.
-
(1990)
J Virol
, vol.64
, pp. 5840-5850
-
-
Simmonds, P.1
Balfe, P.2
Ludlam, C.A.3
Bishop, J.O.4
Brown, A.J.5
-
58
-
-
0025124532
-
Human immunodeficiency virus-infected individuals contain provirus in small numbers of peripheral mononuclear cells and at low copy numbers
-
Simmonds P, Balfe P, Peutherer JF, Ludlam CA, Bishop JO, et al. (1990) Human immunodeficiency virus-infected individuals contain provirus in small numbers of peripheral mononuclear cells and at low copy numbers. J Virol 64: 864-872.
-
(1990)
J Virol
, vol.64
, pp. 864-872
-
-
Simmonds, P.1
Balfe, P.2
Peutherer, J.F.3
Ludlam, C.A.4
Bishop, J.O.5
-
59
-
-
70349754687
-
The efficiency of single genome amplification and sequencing is improved by quantitation and use of a bioinformatics tool
-
Butler DM, Pacold ME, Jordan PS, Richman DD, Smith DM, (2009) The efficiency of single genome amplification and sequencing is improved by quantitation and use of a bioinformatics tool. J Virol Methods 162: 280-283.
-
(2009)
J Virol Methods
, vol.162
, pp. 280-283
-
-
Butler, D.M.1
Pacold, M.E.2
Jordan, P.S.3
Richman, D.D.4
Smith, D.M.5
-
60
-
-
0032401179
-
Minimizing DNA recombination during long RT-PCR
-
Fang G, Zhu G, Burger H, Keithly JS, Weiser B, (1998) Minimizing DNA recombination during long RT-PCR. J Virol Methods 76: 139-148.
-
(1998)
J Virol Methods
, vol.76
, pp. 139-148
-
-
Fang, G.1
Zhu, G.2
Burger, H.3
Keithly, J.S.4
Weiser, B.5
-
62
-
-
0030060446
-
Long polymerase chain reaction amplification of heterogeneous HIV type 1 templates produces recombination at a relatively high frequency
-
Yang YL, Wang G, Dorman K, Kaplan AH, (1996) Long polymerase chain reaction amplification of heterogeneous HIV type 1 templates produces recombination at a relatively high frequency. AIDS Res Hum Retroviruses 12: 303-306.
-
(1996)
AIDS Res Hum Retroviruses
, vol.12
, pp. 303-306
-
-
Yang, Y.L.1
Wang, G.2
Dorman, K.3
Kaplan, A.H.4
-
63
-
-
41949124934
-
Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing
-
Salazar-Gonzalez JF, Bailes E, Pham KT, Salazar MG, Guffey MB, et al. (2008) Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing. J Virol 82: 3952-3970.
-
(2008)
J Virol
, vol.82
, pp. 3952-3970
-
-
Salazar-Gonzalez, J.F.1
Bailes, E.2
Pham, K.T.3
Salazar, M.G.4
Guffey, M.B.5
-
64
-
-
0041327667
-
Persistent immune activation in HIV-1 infection is associated with progression to AIDS
-
Hazenberg MD, Otto SA, van Benthem BH, Roos MT, Coutinho RA, et al. (2003) Persistent immune activation in HIV-1 infection is associated with progression to AIDS. AIDS 17: 1881-1888.
-
(2003)
AIDS
, vol.17
, pp. 1881-1888
-
-
Hazenberg, M.D.1
Otto, S.A.2
van Benthem, B.H.3
Roos, M.T.4
Coutinho, R.A.5
-
66
-
-
8944249298
-
Maintaining the integrity of human immunodeficiency virus sequence databases
-
Learn GH Jr, Korber BT, Foley B, Hahn BH, Wolinsky SM, et al. (1996) Maintaining the integrity of human immunodeficiency virus sequence databases. J Virol 70: 5720-5730.
-
(1996)
J Virol
, vol.70
, pp. 5720-5730
-
-
Learn Jr., G.H.1
Korber, B.T.2
Foley, B.3
Hahn, B.H.4
Wolinsky, S.M.5
-
67
-
-
67849130553
-
A standardized framework for accurate, high-throughput genotyping of recombinant and non-recombinant viral sequences
-
Alcantara LC, Cassol S, Libin P, Deforche K, Pybus OG, et al. (2009) A standardized framework for accurate, high-throughput genotyping of recombinant and non-recombinant viral sequences. Nucleic Acids Res 37: W634-642.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Alcantara, L.C.1
Cassol, S.2
Libin, P.3
Deforche, K.4
Pybus, O.G.5
-
68
-
-
27544496497
-
An automated genotyping system for analysis of HIV-1 and other microbial sequences
-
de Oliveira T, Deforche K, Cassol S, Salminen M, Paraskevis D, et al. (2005) An automated genotyping system for analysis of HIV-1 and other microbial sequences. Bioinformatics 21: 3797-3800.
-
(2005)
Bioinformatics
, vol.21
, pp. 3797-3800
-
-
de Oliveira, T.1
Deforche, K.2
Cassol, S.3
Salminen, M.4
Paraskevis, D.5
-
69
-
-
0005014748
-
The beta-chemokine receptors CCR3 and CCR5 facilitate infection by primary HIV-1 isolates
-
Choe H, Farzan M, Sun Y, Sullivan N, Rollins B, et al. (1996) The beta-chemokine receptors CCR3 and CCR5 facilitate infection by primary HIV-1 isolates. Cell 85: 1135-1148.
-
(1996)
Cell
, vol.85
, pp. 1135-1148
-
-
Choe, H.1
Farzan, M.2
Sun, Y.3
Sullivan, N.4
Rollins, B.5
-
70
-
-
0031575431
-
Change in coreceptor use correlates with disease progression in HIV-1-infected individuals
-
Connor RI, Sheridan KE, Ceradini D, Choe S, Landau NR, (1997) Change in coreceptor use correlates with disease progression in HIV-1-infected individuals. J Exp Med 185: 621-628.
-
(1997)
J Exp Med
, vol.185
, pp. 621-628
-
-
Connor, R.I.1
Sheridan, K.E.2
Ceradini, D.3
Choe, S.4
Landau, N.R.5
-
71
-
-
12144291059
-
Clinical and immunological impact of HIV envelope V3 sequence variation after starting initial triple antiretroviral therapy
-
Brumme ZL, Dong WW, Yip B, Wynhoven B, Hoffman NG, et al. (2004) Clinical and immunological impact of HIV envelope V3 sequence variation after starting initial triple antiretroviral therapy. AIDS 18: F1-9.
-
(2004)
AIDS
, vol.18
-
-
Brumme, Z.L.1
Dong, W.W.2
Yip, B.3
Wynhoven, B.4
Hoffman, N.G.5
-
72
-
-
10744231634
-
Improved coreceptor usage prediction and genotypic monitoring of R5-to-X4 transition by motif analysis of human immunodeficiency virus type 1 env V3 loop sequences
-
Jensen MA, Li FS, van't Wout AB, Nickle DC, Shriner D, et al. (2003) Improved coreceptor usage prediction and genotypic monitoring of R5-to-X4 transition by motif analysis of human immunodeficiency virus type 1 env V3 loop sequences. J Virol 77: 13376-13388.
-
(2003)
J Virol
, vol.77
, pp. 13376-13388
-
-
Jensen, M.A.1
Li, F.S.2
van't Wout, A.B.3
Nickle, D.C.4
Shriner, D.5
-
73
-
-
0028027078
-
The impact of the syncytium-inducing phenotype of human immunodeficiency virus on disease progression
-
Richman DD, Bozzette SA, (1994) The impact of the syncytium-inducing phenotype of human immunodeficiency virus on disease progression. J Infect Dis 169: 968-974.
-
(1994)
J Infect Dis
, vol.169
, pp. 968-974
-
-
Richman, D.D.1
Bozzette, S.A.2
-
74
-
-
0742325043
-
The CCR5 and CXCR4 coreceptors-central to understanding the transmission and pathogenesis of human immunodeficiency virus type 1 infection
-
Moore JP, Kitchen SG, Pugach P, Zack JA, (2004) The CCR5 and CXCR4 coreceptors-central to understanding the transmission and pathogenesis of human immunodeficiency virus type 1 infection. AIDS Res Hum Retroviruses 20: 111-126.
-
(2004)
AIDS Res Hum Retroviruses
, vol.20
, pp. 111-126
-
-
Moore, J.P.1
Kitchen, S.G.2
Pugach, P.3
Zack, J.A.4
-
75
-
-
33645046393
-
Selective transmission of CCR5-utilizing HIV-1: the 'gatekeeper' problem resolved?
-
Margolis L, Shattock R, (2006) Selective transmission of CCR5-utilizing HIV-1: the 'gatekeeper' problem resolved? Nat Rev Microbiol 4: 312-317.
-
(2006)
Nat Rev Microbiol
, vol.4
, pp. 312-317
-
-
Margolis, L.1
Shattock, R.2
-
76
-
-
33846623260
-
Development and characterization of a novel single-cycle recombinant-virus assay to determine human immunodeficiency virus type 1 coreceptor tropism
-
Whitcomb JM, Huang W, Fransen S, Limoli K, Toma J, et al. (2007) Development and characterization of a novel single-cycle recombinant-virus assay to determine human immunodeficiency virus type 1 coreceptor tropism. Antimicrob Agents Chemother 51: 566-575.
-
(2007)
Antimicrob Agents Chemother
, vol.51
, pp. 566-575
-
-
Whitcomb, J.M.1
Huang, W.2
Fransen, S.3
Limoli, K.4
Toma, J.5
-
77
-
-
44649102135
-
Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection
-
Keele BF, Giorgi EE, Salazar-Gonzalez JF, Decker JM, Pham KT, et al. (2008) Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection. Proc Natl Acad Sci U S A 105: 7552-7557.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 7552-7557
-
-
Keele, B.F.1
Giorgi, E.E.2
Salazar-Gonzalez, J.F.3
Decker, J.M.4
Pham, K.T.5
-
78
-
-
34547781750
-
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
-
Tamura K, Dudley J, Nei M, Kumar S, (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24: 1596-1599.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
79
-
-
0034124124
-
Detecting hypermutations in viral sequences with an emphasis on G→A hypermutation
-
Rose PP, Korber BT, (2000) Detecting hypermutations in viral sequences with an emphasis on G→A hypermutation. Bioinformatics 16: 400-401.
-
(2000)
Bioinformatics
, vol.16
, pp. 400-401
-
-
Rose, P.P.1
Korber, B.T.2
-
80
-
-
0028180510
-
G→A hypermutation of the human immunodeficiency virus type 1 genome: evidence for dCTP pool imbalance during reverse transcription
-
Vartanian JP, Meyerhans A, Sala M, Wain-Hobson S, (1994) G→A hypermutation of the human immunodeficiency virus type 1 genome: evidence for dCTP pool imbalance during reverse transcription. Proc Natl Acad Sci U S A 91: 3092-3096.
-
(1994)
Proc Natl Acad Sci U S A
, vol.91
, pp. 3092-3096
-
-
Vartanian, J.P.1
Meyerhans, A.2
Sala, M.3
Wain-Hobson, S.4
-
81
-
-
0027946446
-
Hypermutagenesis of RNA using human immunodeficiency virus type 1 reverse transcriptase and biased dNTP concentrations
-
Martinez MA, Vartanian JP, Wain-Hobson S, (1994) Hypermutagenesis of RNA using human immunodeficiency virus type 1 reverse transcriptase and biased dNTP concentrations. Proc Natl Acad Sci U S A 91: 11787-11791.
-
(1994)
Proc Natl Acad Sci U S A
, vol.91
, pp. 11787-11791
-
-
Martinez, M.A.1
Vartanian, J.P.2
Wain-Hobson, S.3
-
82
-
-
77954051000
-
High Multiplicity Infection by HIV-1 in Men Who Have Sex with Men
-
Li H, Bar KJ, Wang S, Decker JM, Chen Y, et al. (2010) High Multiplicity Infection by HIV-1 in Men Who Have Sex with Men. PLoS Pathog 6: e1000890.
-
(2010)
PLoS Pathog
, vol.6
-
-
Li, H.1
Bar, K.J.2
Wang, S.3
Decker, J.M.4
Chen, Y.5
-
83
-
-
0032710838
-
Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection
-
Shankarappa R, Margolick JB, Gange SJ, Rodrigo AG, Upchurch D, et al. (1999) Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection. J Virol 73: 10489-10502.
-
(1999)
J Virol
, vol.73
, pp. 10489-10502
-
-
Shankarappa, R.1
Margolick, J.B.2
Gange, S.J.3
Rodrigo, A.G.4
Upchurch, D.5
-
84
-
-
0023375195
-
The neighbor-joining method: a new method for reconstructing phylogenetic trees
-
Saitou N, Nei M, (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
-
(1987)
Mol Biol Evol
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
85
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
Ronquist F, Huelsenbeck JP, (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
-
(2003)
Bioinformatics
, vol.19
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
86
-
-
0022211482
-
Statistical properties of the number of recombination events in the history of a sample of DNA sequences
-
Hudson RR, Kaplan NL, (1985) Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111: 147-164.
-
(1985)
Genetics
, vol.111
, pp. 147-164
-
-
Hudson, R.R.1
Kaplan, N.L.2
-
87
-
-
0347513220
-
DnaSP, DNA polymorphism analyses by the coalescent and other methods
-
Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R, (2003) DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19: 2496-2497.
-
(2003)
Bioinformatics
, vol.19
, pp. 2496-2497
-
-
Rozas, J.1
Sanchez-DelBarrio, J.C.2
Messeguer, X.3
Rozas, R.4
-
88
-
-
33646154660
-
Recco: recombination analysis using cost optimization
-
Maydt J, Lengauer T, (2006) Recco: recombination analysis using cost optimization. Bioinformatics 22: 1064-1071.
-
(2006)
Bioinformatics
, vol.22
, pp. 1064-1071
-
-
Maydt, J.1
Lengauer, T.2
-
89
-
-
78649431227
-
HIV-1 continues to replicate and evolve in patients with natural control of HIV infection
-
Mens H, Kearney M, Wiegand A, Shao W, Schonning K, et al. (2010) HIV-1 continues to replicate and evolve in patients with natural control of HIV infection. J Virol 84: 12971-12981.
-
(2010)
J Virol
, vol.84
, pp. 12971-12981
-
-
Mens, H.1
Kearney, M.2
Wiegand, A.3
Shao, W.4
Schonning, K.5
-
90
-
-
4944263648
-
A robust measure of HIV-1 population turnover within chronically infected individuals
-
Achaz G, Palmer S, Kearney M, Maldarelli F, Mellors JW, et al. (2004) A robust measure of HIV-1 population turnover within chronically infected individuals. Mol Biol Evol 21: 1902-1912.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 1902-1912
-
-
Achaz, G.1
Palmer, S.2
Kearney, M.3
Maldarelli, F.4
Mellors, J.W.5
-
91
-
-
0026512283
-
A statistical test for detecting geographic subdivision
-
Hudson RR, Boos DD, Kaplan NL, (1992) A statistical test for detecting geographic subdivision. Mol Biol Evol 9: 138-151.
-
(1992)
Mol Biol Evol
, vol.9
, pp. 138-151
-
-
Hudson, R.R.1
Boos, D.D.2
Kaplan, N.L.3
-
92
-
-
78650637689
-
Genetic diversity of simian immunodeficiency virus encoding HIV-1 reverse transcriptase persists in macaques despite antiretroviral therapy
-
Kearney M, Spindler J, Shao W, Maldarelli F, Palmer S, et al. (2011) Genetic diversity of simian immunodeficiency virus encoding HIV-1 reverse transcriptase persists in macaques despite antiretroviral therapy. J Virol 85: 1067-1076.
-
(2011)
J Virol
, vol.85
, pp. 1067-1076
-
-
Kearney, M.1
Spindler, J.2
Shao, W.3
Maldarelli, F.4
Palmer, S.5
-
93
-
-
0024341852
-
A cladistic measure of gene flow inferred from the phylogenies of alleles
-
Slatkin M, Maddison WP, (1989) A cladistic measure of gene flow inferred from the phylogenies of alleles. Genetics 123: 603-613.
-
(1989)
Genetics
, vol.123
, pp. 603-613
-
-
Slatkin, M.1
Maddison, W.P.2
-
94
-
-
15844406550
-
HyPhy: hypothesis testing using phylogenies
-
Pond SL, Frost SD, Muse SV, (2005) HyPhy: hypothesis testing using phylogenies. Bioinformatics 21: 676-679.
-
(2005)
Bioinformatics
, vol.21
, pp. 676-679
-
-
Pond, S.L.1
Frost, S.D.2
Muse, S.V.3
-
95
-
-
77957199746
-
Genetic analyses of HIV-1 env sequences demonstrate limited compartmentalization in breast milk and suggest viral replication within the breast that increases with mastitis
-
Gantt S, Carlsson J, Heath L, Bull ME, Shetty AK, et al. (2010) Genetic analyses of HIV-1 env sequences demonstrate limited compartmentalization in breast milk and suggest viral replication within the breast that increases with mastitis. J Virol 84: 10812-10819.
-
(2010)
J Virol
, vol.84
, pp. 10812-10819
-
-
Gantt, S.1
Carlsson, J.2
Heath, L.3
Bull, M.E.4
Shetty, A.K.5
-
96
-
-
70349204366
-
Evidence for limited genetic compartmentalization of HIV-1 between lung and blood
-
Heath L, Fox A, McClure J, Diem K, van't Wout AB, et al. (2009) Evidence for limited genetic compartmentalization of HIV-1 between lung and blood. PLoS One 4: e6949.
-
(2009)
PLoS One
, vol.4
-
-
Heath, L.1
Fox, A.2
McClure, J.3
Diem, K.4
van't Wout, A.B.5
-
97
-
-
70349626976
-
Compartmentalization of HIV-1 within the female genital tract is due to monotypic and low-diversity variants not distinct viral populations
-
Bull M, Learn G, Genowati I, McKernan J, Hitti J, et al. (2009) Compartmentalization of HIV-1 within the female genital tract is due to monotypic and low-diversity variants not distinct viral populations. PLoS One 4: e7122.
-
(2009)
PLoS One
, vol.4
-
-
Bull, M.1
Learn, G.2
Genowati, I.3
McKernan, J.4
Hitti, J.5
-
98
-
-
66149128413
-
Monotypic human immunodeficiency virus type 1 genotypes across the uterine cervix and in blood suggest proliferation of cells with provirus
-
Bull ME, Learn GH, McElhone S, Hitti J, Lockhart D, et al. (2009) Monotypic human immunodeficiency virus type 1 genotypes across the uterine cervix and in blood suggest proliferation of cells with provirus. J Virol 83: 6020-6028.
-
(2009)
J Virol
, vol.83
, pp. 6020-6028
-
-
Bull, M.E.1
Learn, G.H.2
McElhone, S.3
Hitti, J.4
Lockhart, D.5
-
99
-
-
79953000877
-
A randomized, controlled trial of raltegravir intensification in antiretroviral-treated, HIV-infected patients with a suboptimal CD4+ T cell response
-
Hatano H, Hayes TL, Dahl V, Sinclair E, Lee TH, et al. (2011) A randomized, controlled trial of raltegravir intensification in antiretroviral-treated, HIV-infected patients with a suboptimal CD4+ T cell response. J Infect Dis 203: 960-968.
-
(2011)
J Infect Dis
, vol.203
, pp. 960-968
-
-
Hatano, H.1
Hayes, T.L.2
Dahl, V.3
Sinclair, E.4
Lee, T.H.5
-
100
-
-
77956856393
-
The effect of raltegravir intensification on low-level residual viremia in HIV-infected patients on antiretroviral therapy: a randomized controlled trial
-
Gandhi RT, Zheng L, Bosch RJ, Chan ES, Margolis DM, et al. (2010) The effect of raltegravir intensification on low-level residual viremia in HIV-infected patients on antiretroviral therapy: a randomized controlled trial. PLoS Med 7: pii: e1000321.
-
(2010)
PLoS Med
, vol.7
-
-
Gandhi, R.T.1
Zheng, L.2
Bosch, R.J.3
Chan, E.S.4
Margolis, D.M.5
-
101
-
-
78549245806
-
Effect of raltegravir-containing intensification on HIV burden and T-cell activation in multiple gut sites of HIV-positive adults on suppressive antiretroviral therapy
-
Yukl SA, Shergill AK, McQuaid K, Gianella S, Lampiris H, et al. (2010) Effect of raltegravir-containing intensification on HIV burden and T-cell activation in multiple gut sites of HIV-positive adults on suppressive antiretroviral therapy. AIDS 24: 2451-2460.
-
(2010)
AIDS
, vol.24
, pp. 2451-2460
-
-
Yukl, S.A.1
Shergill, A.K.2
McQuaid, K.3
Gianella, S.4
Lampiris, H.5
-
102
-
-
79958717142
-
Lack of compartmentalization of HIV-1 quasispecies between the gut and peripheral blood compartments
-
Imamichi H, Degray G, Dewar RL, Mannon P, Yao M, et al. (2011) Lack of compartmentalization of HIV-1 quasispecies between the gut and peripheral blood compartments. J Infect Dis 204: 309-314.
-
(2011)
J Infect Dis
, vol.204
, pp. 309-314
-
-
Imamichi, H.1
Degray, G.2
Dewar, R.L.3
Mannon, P.4
Yao, M.5
-
103
-
-
79955436097
-
Gut mucosal viral reservoir in HIV infected patients is not the major source of rebound plasma viremia following HAART interruption
-
Lerner P, Guadalupe M, Donovan R, Hung J, Flamm J, et al. (2011) Gut mucosal viral reservoir in HIV infected patients is not the major source of rebound plasma viremia following HAART interruption. J Virol 85: 4772-4782.
-
(2011)
J Virol
, vol.85
, pp. 4772-4782
-
-
Lerner, P.1
Guadalupe, M.2
Donovan, R.3
Hung, J.4
Flamm, J.5
-
104
-
-
79955402159
-
Clonal Sequences Recovered From Residual HIV-1 Viremia In Patients On Intensified Antiretroviral Therapy Are Identical To Replicating Viral RNAs Recovered From Circulating Resting CD4+ T Cells
-
Anderson JA, Archin NM, Ince W, Parker D, Wiegand A, et al. (2011) Clonal Sequences Recovered From Residual HIV-1 Viremia In Patients On Intensified Antiretroviral Therapy Are Identical To Replicating Viral RNAs Recovered From Circulating Resting CD4+ T Cells. J Virol 85: 5220-5223.
-
(2011)
J Virol
, vol.85
, pp. 5220-5223
-
-
Anderson, J.A.1
Archin, N.M.2
Ince, W.3
Parker, D.4
Wiegand, A.5
-
105
-
-
77749277080
-
Short-course raltegravir intensification does not reduce persistent low-level viremia in patients with HIV-1 suppression during receipt of combination antiretroviral therapy
-
McMahon D, Jones J, Wiegand A, Gange SJ, Kearney M, et al. (2010) Short-course raltegravir intensification does not reduce persistent low-level viremia in patients with HIV-1 suppression during receipt of combination antiretroviral therapy. Clin Infect Dis 50: 912-919.
-
(2010)
Clin Infect Dis
, vol.50
, pp. 912-919
-
-
McMahon, D.1
Jones, J.2
Wiegand, A.3
Gange, S.J.4
Kearney, M.5
-
106
-
-
32944464685
-
Scientific rationale for antiretroviral therapy in 2005: viral reservoirs and resistance evolution
-
Siliciano RF, (2005) Scientific rationale for antiretroviral therapy in 2005: viral reservoirs and resistance evolution. Top HIV Med 13: 96-100.
-
(2005)
Top HIV Med
, vol.13
, pp. 96-100
-
-
Siliciano, R.F.1
-
107
-
-
0041828179
-
Dynamics of HIV viremia and antibody seroconversion in plasma donors: implications for diagnosis and staging of primary HIV infection
-
Fiebig EW, Wright DJ, Rawal BD, Garrett PE, Schumacher RT, et al. (2003) Dynamics of HIV viremia and antibody seroconversion in plasma donors: implications for diagnosis and staging of primary HIV infection. AIDS 17: 1871-1879.
-
(2003)
AIDS
, vol.17
, pp. 1871-1879
-
-
Fiebig, E.W.1
Wright, D.J.2
Rawal, B.D.3
Garrett, P.E.4
Schumacher, R.T.5
-
109
-
-
0032849859
-
CAP3: A DNA sequence assembly program
-
Huang X, Madan A, (1999) CAP3: A DNA sequence assembly program. Genome Res 9: 868-877.
-
(1999)
Genome Res
, vol.9
, pp. 868-877
-
-
Huang, X.1
Madan, A.2
-
110
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
-
111
-
-
0027157960
-
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
-
Tamura K, Nei M, (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10: 512-526.
-
(1993)
Mol Biol Evol
, vol.10
, pp. 512-526
-
-
Tamura, K.1
Nei, M.2
-
112
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon S, Gascuel O, (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52: 696-704.
-
(2003)
Syst Biol
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
|