-
1
-
-
0035805178
-
HIV in body fluids during primary HIV infection: implications for pathogenesis, treatment and public health
-
Pilcher CD, Shugars DC, Fiscus SA, Miller WC, Menezes P, et al. (2001) HIV in body fluids during primary HIV infection: implications for pathogenesis, treatment and public health. Aids 15: 837-845.
-
(2001)
Aids
, vol.15
, pp. 837-845
-
-
Pilcher, C.D.1
Shugars, D.C.2
Fiscus, S.A.3
Miller, W.C.4
Menezes, P.5
-
2
-
-
3142651433
-
Snapshot of a pandemic
-
Pilcher H, (2004) Snapshot of a pandemic. Nature 430: 134-135.
-
(2004)
Nature
, vol.430
, pp. 134-135
-
-
Pilcher, H.1
-
3
-
-
0035840895
-
Sexual transmission during the incubation period of primary HIV infection
-
Pilcher CD, Eron JJ Jr, Vemazza PL, Battegay M, Harr T, et al. (2001) Sexual transmission during the incubation period of primary HIV infection. Jama 286: 1713-1714.
-
(2001)
Jama
, vol.286
, pp. 1713-1714
-
-
Pilcher, C.D.1
Eron Jr., J.J.2
Vemazza, P.L.3
Battegay, M.4
Harr, T.5
-
4
-
-
0034732201
-
Viral load and heterosexual transmission of human immunodeficiency virus type 1. Rakai Project Study Group
-
Quinn TC, Wawer MJ, Sewankambo N, Serwadda D, Li C, et al. (2000) Viral load and heterosexual transmission of human immunodeficiency virus type 1. Rakai Project Study Group. N Engl J Med 342: 921-929.
-
(2000)
N Engl J Med
, vol.342
, pp. 921-929
-
-
Quinn, T.C.1
Wawer, M.J.2
Sewankambo, N.3
Serwadda, D.4
Li, C.5
-
5
-
-
0035857959
-
Probability of HIV-1 transmission per coital act in monogamous, heterosexual, HIV-1-discordant couples in Rakai, Uganda
-
Gray RH, Wawer MJ, Brookmeyer R, Sewankambo NK, Serwadda D, et al. (2001) Probability of HIV-1 transmission per coital act in monogamous, heterosexual, HIV-1-discordant couples in Rakai, Uganda. Lancet 357: 1149-1153.
-
(2001)
Lancet
, vol.357
, pp. 1149-1153
-
-
Gray, R.H.1
Wawer, M.J.2
Brookmeyer, R.3
Sewankambo, N.K.4
Serwadda, D.5
-
6
-
-
70349970517
-
T cell vaccination reduces SIV in semen
-
Whitney JB, Luedemann C, Hraber P, Rao SS, Mascola JR, et al. (2009) T cell vaccination reduces SIV in semen. J Virol 83 (20): 10840-3.
-
(2009)
J Virol
, vol.83
, Issue.20
, pp. 10840-10843
-
-
Whitney, J.B.1
Luedemann, C.2
Hraber, P.3
Rao, S.S.4
Mascola, J.R.5
-
7
-
-
2142807626
-
Brief but efficient: acute HIV infection and the sexual transmission of HIV
-
Pilcher CD, Tien HC, Eron JJ Jr, Vernazza PL, Leu SY, et al. (2004) Brief but efficient: acute HIV infection and the sexual transmission of HIV. J Infect Dis 189: 1785-1792.
-
(2004)
J Infect Dis
, vol.189
, pp. 1785-1792
-
-
Pilcher, C.D.1
Tien, H.C.2
Eron Jr., J.J.3
Vernazza, P.L.4
Leu, S.Y.5
-
8
-
-
0028952146
-
HIV population dynamics in vivo: implications for genetic variation, pathogenesis, and therapy
-
Coffin JM, (1995) HIV population dynamics in vivo: implications for genetic variation, pathogenesis, and therapy. Science 267: 483-489.
-
(1995)
Science
, vol.267
, pp. 483-489
-
-
Coffin, J.M.1
-
9
-
-
0025133325
-
HIV mutation rate
-
Nowak M, (1990) HIV mutation rate. Nature 347: 522.
-
(1990)
Nature
, vol.347
, pp. 522
-
-
Nowak, M.1
-
10
-
-
0242331608
-
HIV-1 in genital tract and plasma of women: compartmentalization of viral sequences, coreceptor usage, and glycosylation
-
Kemal KS, Foley B, Burger H, Anastos K, Minkoff H, et al. (2003) HIV-1 in genital tract and plasma of women: compartmentalization of viral sequences, coreceptor usage, and glycosylation. Proc Natl Acad Sci U S A 100: 12972-12977.
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 12972-12977
-
-
Kemal, K.S.1
Foley, B.2
Burger, H.3
Anastos, K.4
Minkoff, H.5
-
11
-
-
0032558795
-
Resistance of HIV-1 to antiretroviral agents in blood and seminal plasma: implications for transmission
-
Eron JJ, Vernazza PL, Johnston DM, Seillier-Moiseiwitsch F, Alcorn TM, et al. (1998) Resistance of HIV-1 to antiretroviral agents in blood and seminal plasma: implications for transmission. Aids 12: F181-189.
-
(1998)
Aids
, vol.12
-
-
Eron, J.J.1
Vernazza, P.L.2
Johnston, D.M.3
Seillier-Moiseiwitsch, F.4
Alcorn, T.M.5
-
12
-
-
0033942272
-
Human immunodeficiency virus type 1 shedding pattern in semen correlates with the compartmentalization of viral Quasi species between blood and semen
-
Gupta P, Leroux C, Patterson BK, Kingsley L, Rinaldo C, et al. (2000) Human immunodeficiency virus type 1 shedding pattern in semen correlates with the compartmentalization of viral Quasi species between blood and semen. J Infect Dis 182: 79-87.
-
(2000)
J Infect Dis
, vol.182
, pp. 79-87
-
-
Gupta, P.1
Leroux, C.2
Patterson, B.K.3
Kingsley, L.4
Rinaldo, C.5
-
13
-
-
0035162203
-
Despite high concordance, distinct mutational and phenotypic drug resistance profiles in human immunodeficiency virus type 1 RNA are observed in gastrointestinal mucosal biopsy specimens and peripheral blood mononuclear cells compared with plasma
-
Poles MA, Elliott J, Vingerhoets J, Michiels L, Scholliers A, et al. (2001) Despite high concordance, distinct mutational and phenotypic drug resistance profiles in human immunodeficiency virus type 1 RNA are observed in gastrointestinal mucosal biopsy specimens and peripheral blood mononuclear cells compared with plasma. J Infect Dis 183: 143-148.
-
(2001)
J Infect Dis
, vol.183
, pp. 143-148
-
-
Poles, M.A.1
Elliott, J.2
Vingerhoets, J.3
Michiels, L.4
Scholliers, A.5
-
14
-
-
0031981525
-
Human immunodeficiency virus in semen arises from a genetically distinct virus reservoir
-
Kiessling AA, Fitzgerald LM, Zhang D, Chhay H, Brettler D, et al. (1998) Human immunodeficiency virus in semen arises from a genetically distinct virus reservoir. AIDS Res Hum Retroviruses 14 (Suppl 1): S33-41.
-
(1998)
AIDS Res Hum Retroviruses
, vol.14
, Issue.SUPPL. 1
-
-
Kiessling, A.A.1
Fitzgerald, L.M.2
Zhang, D.3
Chhay, H.4
Brettler, D.5
-
15
-
-
0343145742
-
HIV-1 in semen: an isolated virus reservoir
-
Byrn RA, Zhang D, Eyre R, McGowan K, Kiessling AA, (1997) HIV-1 in semen: an isolated virus reservoir. Lancet 350: 1141.
-
(1997)
Lancet
, vol.350
, pp. 1141
-
-
Byrn, R.A.1
Zhang, D.2
Eyre, R.3
McGowan, K.4
Kiessling, A.A.5
-
16
-
-
10644234595
-
Human immunodeficiency virus type 1 genomic RNA sequences in the female genital tract and blood: compartmentalization and intrapatient recombination
-
Philpott S, Burger H, Tsoukas C, Foley B, Anastos K, et al. (2005) Human immunodeficiency virus type 1 genomic RNA sequences in the female genital tract and blood: compartmentalization and intrapatient recombination. J Virol 79: 353-363.
-
(2005)
J Virol
, vol.79
, pp. 353-363
-
-
Philpott, S.1
Burger, H.2
Tsoukas, C.3
Foley, B.4
Anastos, K.5
-
17
-
-
0031975192
-
Human immunodeficiency virus type 1 populations in blood and semen
-
Delwart EL, Mullins JI, Gupta P, Learn GH Jr, Holodniy M, et al. (1998) Human immunodeficiency virus type 1 populations in blood and semen. J Virol 72: 617-623.
-
(1998)
J Virol
, vol.72
, pp. 617-623
-
-
Delwart, E.L.1
Mullins, J.I.2
Gupta, P.3
Learn Jr., G.H.4
Holodniy, M.5
-
18
-
-
42449164708
-
Male genital tract compartmentalization of human immunodeficiency virus type 1 (HIV)
-
Diem K, Nickle DC, Motoshige A, Fox A, Ross S, et al. (2008) Male genital tract compartmentalization of human immunodeficiency virus type 1 (HIV). AIDS Res Hum Retroviruses 24: 561-571.
-
(2008)
AIDS Res Hum Retroviruses
, vol.24
, pp. 561-571
-
-
Diem, K.1
Nickle, D.C.2
Motoshige, A.3
Fox, A.4
Ross, S.5
-
19
-
-
0036936895
-
Subcompartmentalization of HIV-1 quasispecies between seminal cells and seminal plasma indicates their origin in distinct genital tissues
-
Paranjpe S, Craigo J, Patterson B, Ding M, Barroso P, et al. (2002) Subcompartmentalization of HIV-1 quasispecies between seminal cells and seminal plasma indicates their origin in distinct genital tissues. AIDS Res Hum Retroviruses 18: 1271-1280.
-
(2002)
AIDS Res Hum Retroviruses
, vol.18
, pp. 1271-1280
-
-
Paranjpe, S.1
Craigo, J.2
Patterson, B.3
Ding, M.4
Barroso, P.5
-
20
-
-
27844435285
-
Standing in the way of eradication: HIV-1 infection and treatment in the male genital tract
-
Shehu-Xhilaga M, de Kretser D, Dejucq-Rainsford N, Hedger M, (2005) Standing in the way of eradication: HIV-1 infection and treatment in the male genital tract. Curr HIV Res 3: 345-359.
-
(2005)
Curr HIV Res
, vol.3
, pp. 345-359
-
-
Shehu-Xhilaga, M.1
de Kretser, D.2
Dejucq-Rainsford, N.3
Hedger, M.4
-
21
-
-
33847641209
-
Susceptibility of human testis to human immunodeficiency virus-1 infection in situ and in vitro
-
Roulet V, Satie AP, Ruffault A, Le Tortorec A, Denis H, et al. (2006) Susceptibility of human testis to human immunodeficiency virus-1 infection in situ and in vitro. Am J Pathol 169: 2094-2103.
-
(2006)
Am J Pathol
, vol.169
, pp. 2094-2103
-
-
Roulet, V.1
Satie, A.P.2
Ruffault, A.3
Le Tortorec, A.4
Denis, H.5
-
22
-
-
33749004505
-
Human testis in organotypic culture: application for basic or clinical research
-
Roulet V, Denis H, Staub C, Le Tortorec A, Delaleu B, et al. (2006) Human testis in organotypic culture: application for basic or clinical research. Hum Reprod 21: 1564-1575.
-
(2006)
Hum Reprod
, vol.21
, pp. 1564-1575
-
-
Roulet, V.1
Denis, H.2
Staub, C.3
Le Tortorec, A.4
Delaleu, B.5
-
23
-
-
61849118067
-
Human prostate supports more efficient replication of HIV-1 R5 than X4 strains ex vivo
-
Le Tortorec A, Satie AP, Denis H, Rioux-Leclercq N, Havard L, et al. (2008) Human prostate supports more efficient replication of HIV-1 R5 than X4 strains ex vivo. Retrovirology 5: 119.
-
(2008)
Retrovirology
, vol.5
, pp. 119
-
-
Le Tortorec, A.1
Satie, A.P.2
Denis, H.3
Rioux-Leclercq, N.4
Havard, L.5
-
24
-
-
46349099527
-
Infection of semen-producing organs by SIV during the acute and chronic stages of the disease
-
Le Tortorec A, Le Grand R, Denis H, Satie AP, Mannioui K, et al. (2008) Infection of semen-producing organs by SIV during the acute and chronic stages of the disease. PLoS One 3: e1792.
-
(2008)
PLoS One
, vol.3
-
-
Le Tortorec, A.1
Le Grand, R.2
Denis, H.3
Satie, A.P.4
Mannioui, K.5
-
25
-
-
54149086774
-
Antiviral responses of human Leydig cells to mumps virus infection or poly I:C stimulation
-
Le Tortorec A, Denis H, Satie AP, Patard JJ, Ruffault A, et al. (2008) Antiviral responses of human Leydig cells to mumps virus infection or poly I:C stimulation. Hum Reprod 23: 2095-2103.
-
(2008)
Hum Reprod
, vol.23
, pp. 2095-2103
-
-
Le Tortorec, A.1
Denis, H.2
Satie, A.P.3
Patard, J.J.4
Ruffault, A.5
-
26
-
-
74349122226
-
HIV infection of the male genital tract - consequences for sexual transmission and reproduction
-
Le Tortorec A, Dejucq-Rainsford N, (2009) HIV infection of the male genital tract- consequences for sexual transmission and reproduction. Int J Androl 33: e98-e108.
-
(2009)
Int J Androl
, vol.33
-
-
Le Tortorec, A.1
Dejucq-Rainsford, N.2
-
28
-
-
1042286878
-
Viruses in semen and male genital tissues-consequences for the reproductive system and therapeutic perspectives
-
Dejucq-Rainsford N, Jegou B, (2004) Viruses in semen and male genital tissues-consequences for the reproductive system and therapeutic perspectives. Curr Pharm Des 10: 557-575.
-
(2004)
Curr Pharm Des
, vol.10
, pp. 557-575
-
-
Dejucq-Rainsford, N.1
Jegou, B.2
-
29
-
-
0028322910
-
Pathology and localization of simian immunodeficiency virus in the reproductive tract of chronically infected male rhesus macaques
-
Miller CJ, Vogel P, Alexander NJ, Dandekar S, Hendrickx AG, et al. (1994) Pathology and localization of simian immunodeficiency virus in the reproductive tract of chronically infected male rhesus macaques. Lab Invest 70: 255-262.
-
(1994)
Lab Invest
, vol.70
, pp. 255-262
-
-
Miller, C.J.1
Vogel, P.2
Alexander, N.J.3
Dandekar, S.4
Hendrickx, A.G.5
-
30
-
-
0032433129
-
Analysis of human immunodeficiency virus in semen: indications of a genetically distinct virus reservoir
-
Byrn RA, Kiessling AA, (1998) Analysis of human immunodeficiency virus in semen: indications of a genetically distinct virus reservoir. J Reprod Immunol 41: 161-176.
-
(1998)
J Reprod Immunol
, vol.41
, pp. 161-176
-
-
Byrn, R.A.1
Kiessling, A.A.2
-
31
-
-
4744357409
-
Penetration of enfuvirtide, tenofovir, efavirenz, and protease inhibitors in the genital tract of HIV-1-infected men
-
Ghosn J, Chaix ML, Peytavin G, Rey E, Bresson JL, et al. (2004) Penetration of enfuvirtide, tenofovir, efavirenz, and protease inhibitors in the genital tract of HIV-1-infected men. Aids 18: 1958-1961.
-
(2004)
Aids
, vol.18
, pp. 1958-1961
-
-
Ghosn, J.1
Chaix, M.L.2
Peytavin, G.3
Rey, E.4
Bresson, J.L.5
-
32
-
-
0028091742
-
Detection of drug resistance mutations in the human immunodeficiency virus type 1 (HIV-1) pol gene: differences in semen and blood HIV-1 RNA and proviral DNA
-
Kroodsma KL, Kozal MJ, Hamed KA, Winters MA, Merigan TC, (1994) Detection of drug resistance mutations in the human immunodeficiency virus type 1 (HIV-1) pol gene: differences in semen and blood HIV-1 RNA and proviral DNA. J Infect Dis 170: 1292-1295.
-
(1994)
J Infect Dis
, vol.170
, pp. 1292-1295
-
-
Kroodsma, K.L.1
Kozal, M.J.2
Hamed, K.A.3
Winters, M.A.4
Merigan, T.C.5
-
33
-
-
34447648181
-
Long-term persistence of transmitted HIV drug resistance in male genital tract secretions: implications for secondary transmission
-
Smith DM, Wong JK, Shao H, Hightower GK, Mai SH, et al. (2007) Long-term persistence of transmitted HIV drug resistance in male genital tract secretions: implications for secondary transmission. J Infect Dis 196: 356-360.
-
(2007)
J Infect Dis
, vol.196
, pp. 356-360
-
-
Smith, D.M.1
Wong, J.K.2
Shao, H.3
Hightower, G.K.4
Mai, S.H.5
-
34
-
-
0033803354
-
Effects of genital tract inflammation on human immunodeficiency virus type 1 V3 populations in blood and semen
-
Ping LH, Cohen MS, Hoffman I, Vernazza P, Seillier-Moiseiwitsch F, et al. (2000) Effects of genital tract inflammation on human immunodeficiency virus type 1 V3 populations in blood and semen. J Virol 74: 8946-8952.
-
(2000)
J Virol
, vol.74
, pp. 8946-8952
-
-
Ping, L.H.1
Cohen, M.S.2
Hoffman, I.3
Vernazza, P.4
Seillier-Moiseiwitsch, F.5
-
35
-
-
0029998895
-
Genetic characterization of human immunodeficiency virus type 1 in blood and genital secretions: evidence for viral compartmentalization and selection during sexual transmission
-
Zhu T, Wang N, Carr A, Nam DS, Moor-Jankowski R, et al. (1996) Genetic characterization of human immunodeficiency virus type 1 in blood and genital secretions: evidence for viral compartmentalization and selection during sexual transmission. J Virol 70: 3098-3107.
-
(1996)
J Virol
, vol.70
, pp. 3098-3107
-
-
Zhu, T.1
Wang, N.2
Carr, A.3
Nam, D.S.4
Moor-Jankowski, R.5
-
36
-
-
34547801371
-
Amplified transmission of HIV-1: comparison of HIV-1 concentrations in semen and blood during acute and chronic infection
-
Pilcher CD, Joaki G, Hoffman IF, Martinson FE, Mapanje C, et al. (2007) Amplified transmission of HIV-1: comparison of HIV-1 concentrations in semen and blood during acute and chronic infection. Aids 21: 1723-1730.
-
(2007)
Aids
, vol.21
, pp. 1723-1730
-
-
Pilcher, C.D.1
Joaki, G.2
Hoffman, I.F.3
Martinson, F.E.4
Mapanje, C.5
-
37
-
-
12144286858
-
Frequent detection of acute primary HIV infection in men in Malawi
-
Pilcher CD, Price MA, Hoffman IF, Galvin S, Martinson FE, et al. (2004) Frequent detection of acute primary HIV infection in men in Malawi. Aids 18: 517-524.
-
(2004)
Aids
, vol.18
, pp. 517-524
-
-
Pilcher, C.D.1
Price, M.A.2
Hoffman, I.F.3
Galvin, S.4
Martinson, F.E.5
-
38
-
-
0026700248
-
Identification of HIV-1 in semen following primary HIV-1 infection
-
Tindall B, Evans L, Cunningham P, McQueen P, Hurren L, et al. (1992) Identification of HIV-1 in semen following primary HIV-1 infection. Aids 6: 949-952.
-
(1992)
Aids
, vol.6
, pp. 949-952
-
-
Tindall, B.1
Evans, L.2
Cunningham, P.3
McQueen, P.4
Hurren, L.5
-
39
-
-
4644296727
-
Multiple V1/V2 env variants are frequently present during primary infection with human immunodeficiency virus type 1
-
Ritola K, Pilcher CD, Fiscus SA, Hoffman NG, Nelson JA, et al. (2004) Multiple V1/V2 env variants are frequently present during primary infection with human immunodeficiency virus type 1. J Virol 78: 11208-11218.
-
(2004)
J Virol
, vol.78
, pp. 11208-11218
-
-
Ritola, K.1
Pilcher, C.D.2
Fiscus, S.A.3
Hoffman, N.G.4
Nelson, J.A.5
-
40
-
-
0036720436
-
Compartmentalization of surface envelope glycoprotein of human immunodeficiency virus type 1 during acute and chronic infection
-
Zhang L, Rowe L, He T, Chung C, Yu J, et al. (2002) Compartmentalization of surface envelope glycoprotein of human immunodeficiency virus type 1 during acute and chronic infection. J Virol 76: 9465-9473.
-
(2002)
J Virol
, vol.76
, pp. 9465-9473
-
-
Zhang, L.1
Rowe, L.2
He, T.3
Chung, C.4
Yu, J.5
-
41
-
-
0037016479
-
Residual HIV-1 disease in seminal cells of HIV-1-infected men on suppressive HAART: latency without on-going cellular infections
-
Nunnari G, Otero M, Dornadula G, Vanella M, Zhang H, et al. (2002) Residual HIV-1 disease in seminal cells of HIV-1-infected men on suppressive HAART: latency without on-going cellular infections. Aids 16: 39-45.
-
(2002)
Aids
, vol.16
, pp. 39-45
-
-
Nunnari, G.1
Otero, M.2
Dornadula, G.3
Vanella, M.4
Zhang, H.5
-
42
-
-
39649118011
-
Human immunodeficiency virus viral load in blood plasma and semen: review and implications of empirical findings
-
Kalichman SC, Di Berto G, Eaton L, (2008) Human immunodeficiency virus viral load in blood plasma and semen: review and implications of empirical findings. Sex Transm Dis 35: 55-60.
-
(2008)
Sex Transm Dis
, vol.35
, pp. 55-60
-
-
Kalichman, S.C.1
Di Berto, G.2
Eaton, L.3
-
43
-
-
34249938830
-
Comparative study of methods for detecting sequence compartmentalization in human immunodeficiency virus type 1
-
Zarate S, Pond SL, Shapshak P, Frost SD, (2007) Comparative study of methods for detecting sequence compartmentalization in human immunodeficiency virus type 1. J Virol 81: 6643-6651.
-
(2007)
J Virol
, vol.81
, pp. 6643-6651
-
-
Zarate, S.1
Pond, S.L.2
Shapshak, P.3
Frost, S.D.4
-
44
-
-
70349970517
-
T-cell vaccination reduces simian immunodeficiency virus levels in semen
-
Whitney JB, Luedemann C, Hraber P, Rao SS, Mascola JR, et al. (2009) T-cell vaccination reduces simian immunodeficiency virus levels in semen. J Virol 83: 10840-10843.
-
(2009)
J Virol
, vol.83
, pp. 10840-10843
-
-
Whitney, J.B.1
Luedemann, C.2
Hraber, P.3
Rao, S.S.4
Mascola, J.R.5
-
45
-
-
66049157864
-
Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1
-
Keele BF, Li H, Learn GH, Hraber P, Giorgi EE, et al. (2009) Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1. J Exp Med 206: 1117-1134.
-
(2009)
J Exp Med
, vol.206
, pp. 1117-1134
-
-
Keele, B.F.1
Li, H.2
Learn, G.H.3
Hraber, P.4
Giorgi, E.E.5
-
46
-
-
9744280420
-
Tracking global patterns of N-linked glycosylation site variation in highly variable viral glycoproteins: HIV, SIV, and HCV envelopes and influenza hemagglutinin
-
Zhang M, Gaschen B, Blay W, Foley B, Haigwood N, et al. (2004) Tracking global patterns of N-linked glycosylation site variation in highly variable viral glycoproteins: HIV, SIV, and HCV envelopes and influenza hemagglutinin. Glycobiology 14: 1229-1246.
-
(2004)
Glycobiology
, vol.14
, pp. 1229-1246
-
-
Zhang, M.1
Gaschen, B.2
Blay, W.3
Foley, B.4
Haigwood, N.5
-
47
-
-
17744396121
-
Not so different after all: a comparison of methods for detecting amino acid sites under selection
-
Kosakovsky Pond SL, Frost SD, (2005) Not so different after all: a comparison of methods for detecting amino acid sites under selection. Mol Biol Evol 22: 1208-1222.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1208-1222
-
-
Kosakovsky Pond, S.L.1
Frost, S.D.2
-
48
-
-
33845361366
-
GARD: a genetic algorithm for recombination detection
-
Kosakovsky Pond SL, Posada D, Gravenor MB, Woelk CH, Frost SD, (2006) GARD: a genetic algorithm for recombination detection. Bioinformatics 22: 3096-3098.
-
(2006)
Bioinformatics
, vol.22
, pp. 3096-3098
-
-
Kosakovsky Pond, S.L.1
Posada, D.2
Gravenor, M.B.3
Woelk, C.H.4
Frost, S.D.5
-
49
-
-
13744260977
-
Semen-specific genetic characteristics of human immunodeficiency virus type 1 env
-
Pillai SK, Good B, Pond SK, Wong JK, Strain MC, et al. (2005) Semen-specific genetic characteristics of human immunodeficiency virus type 1 env. J Virol 79: 1734-1742.
-
(2005)
J Virol
, vol.79
, pp. 1734-1742
-
-
Pillai, S.K.1
Good, B.2
Pond, S.K.3
Wong, J.K.4
Strain, M.C.5
-
50
-
-
77953003196
-
The origins of sexually transmitted HIV among men who have sex with men
-
Butler DM, Delport W, Kosakovsky Pond SL, Lakdawala MK, Cheng PM, et al. (2010) The origins of sexually transmitted HIV among men who have sex with men. Sci Transl Med 2: 18re11.
-
(2010)
Sci Transl Med
, vol.2
-
-
Butler, D.M.1
Delport, W.2
Kosakovsky Pond, S.L.3
Lakdawala, M.K.4
Cheng, P.M.5
-
51
-
-
33947399689
-
Founder effects in the assessment of HIV polymorphisms and HLA allele associations
-
Bhattacharya T, Daniels M, Heckerman D, Foley B, Frahm N, et al. (2007) Founder effects in the assessment of HIV polymorphisms and HLA allele associations. Science 315: 1583-1586.
-
(2007)
Science
, vol.315
, pp. 1583-1586
-
-
Bhattacharya, T.1
Daniels, M.2
Heckerman, D.3
Foley, B.4
Frahm, N.5
-
52
-
-
0025048184
-
Detecting isolation by distance using phylogenies of genes
-
Slatkin M, Maddison WP, (1990) Detecting isolation by distance using phylogenies of genes. Genetics 126: 249-260.
-
(1990)
Genetics
, vol.126
, pp. 249-260
-
-
Slatkin, M.1
Maddison, W.P.2
-
53
-
-
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
-
54
-
-
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
-
55
-
-
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
-
56
-
-
33748770095
-
Automated phylogenetic detection of recombination using a genetic algorithm
-
Kosakovsky Pond SL, Posada D, Gravenor MB, Woelk CH, Frost SD, (2006) Automated phylogenetic detection of recombination using a genetic algorithm. Mol Biol Evol 23: 1891-1901.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1891-1901
-
-
Kosakovsky Pond, S.L.1
Posada, D.2
Gravenor, M.B.3
Woelk, C.H.4
Frost, S.D.5
-
57
-
-
66049139947
-
Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection
-
Salazar-Gonzalez JF, Salazar MG, Keele BF, Learn GH, Giorgi EE, et al. (2009) Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection. J Exp Med 206: 1273-1289.
-
(2009)
J Exp Med
, vol.206
, pp. 1273-1289
-
-
Salazar-Gonzalez, J.F.1
Salazar, M.G.2
Keele, B.F.3
Learn, G.H.4
Giorgi, E.E.5
-
58
-
-
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
-
59
-
-
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
-
60
-
-
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
-
61
-
-
0011088395
-
HIV quasispecies and resampling
-
Liu SLRA, Shankarappa R, Learn GH, Hsu L, Davidov O, et al. (1996) HIV quasispecies and resampling. Science 273: 415-416.
-
(1996)
Science
, vol.273
, pp. 415-416
-
-
Liu, S.L.R.A.1
Shankarappa, R.2
Learn, G.H.3
Hsu, L.4
Davidov, O.5
-
62
-
-
68349146396
-
Persistence of HIV-1 receptor-positive cells after HSV-2 reactivation is a potential mechanism for increased HIV-1 acquisition
-
Zhu J, Hladik F, Woodward A, Klock A, Peng T, et al. (2009) Persistence of HIV-1 receptor-positive cells after HSV-2 reactivation is a potential mechanism for increased HIV-1 acquisition. Nat Med 15: 886-892.
-
(2009)
Nat Med
, vol.15
, pp. 886-892
-
-
Zhu, J.1
Hladik, F.2
Woodward, A.3
Klock, A.4
Peng, T.5
-
63
-
-
76149129743
-
Acyclovir and transmission of HIV-1 from persons infected with HIV-1 and HSV-2
-
Celum C, Wald A, Lingappa JR, Magaret AS, Wang RS, et al. (2010) Acyclovir and transmission of HIV-1 from persons infected with HIV-1 and HSV-2. N Engl J Med 362: 427-439.
-
(2010)
N Engl J Med
, vol.362
, pp. 427-439
-
-
Celum, C.1
Wald, A.2
Lingappa, J.R.3
Magaret, A.S.4
Wang, R.S.5
-
64
-
-
77949344846
-
Seminal plasma HIV levels in men with asymptomatic sexually transmitted infections
-
Rieg G, Butler DM, Smith DM, Daar ES, (2010) Seminal plasma HIV levels in men with asymptomatic sexually transmitted infections. Int J STD AIDS 21: 207-208.
-
(2010)
Int J STD AIDS
, vol.21
, pp. 207-208
-
-
Rieg, G.1
Butler, D.M.2
Smith, D.M.3
Daar, E.S.4
-
65
-
-
0030604562
-
Reduction of concentration of HIV-1 in semen after treatment of urethritis: implications for prevention of sexual transmission of HIV-1. AIDSCAP Malawi Research Group
-
Cohen MS, Hoffman IF, Royce RA, Kazembe P, Dyer JR, et al. (1997) Reduction of concentration of HIV-1 in semen after treatment of urethritis: implications for prevention of sexual transmission of HIV-1. AIDSCAP Malawi Research Group. Lancet 349: 1868-1873.
-
(1997)
Lancet
, vol.349
, pp. 1868-1873
-
-
Cohen, M.S.1
Hoffman, I.F.2
Royce, R.A.3
Kazembe, P.4
Dyer, J.R.5
-
66
-
-
59249096215
-
Inflammatory genital infections mitigate a severe genetic bottleneck in heterosexual transmission of subtype A and C HIV-1
-
Haaland RE, Hawkins PA, Salazar-Gonzalez J, Johnson A, Tichacek A, et al. (2009) Inflammatory genital infections mitigate a severe genetic bottleneck in heterosexual transmission of subtype A and C HIV-1. PLoS Pathog 5: e1000274.
-
(2009)
PLoS Pathog
, vol.5
-
-
Haaland, R.E.1
Hawkins, P.A.2
Salazar-Gonzalez, J.3
Johnson, A.4
Tichacek, A.5
-
67
-
-
12144289425
-
Envelope-constrained neutralization-sensitive HIV-1 after heterosexual transmission
-
Derdeyn CA, Decker JM, Bibollet-Ruche F, Mokili JL, Muldoon M, et al. (2004) Envelope-constrained neutralization-sensitive HIV-1 after heterosexual transmission. Science 303: 2019-2022.
-
(2004)
Science
, vol.303
, pp. 2019-2022
-
-
Derdeyn, C.A.1
Decker, J.M.2
Bibollet-Ruche, F.3
Mokili, J.L.4
Muldoon, M.5
-
68
-
-
0018934144
-
Semen parameters in Macaca mulatta: ejaculates from random and selected monkeys
-
Harrison RM, (1980) Semen parameters in Macaca mulatta: ejaculates from random and selected monkeys. J Med Primatol 9: 265-273.
-
(1980)
J Med Primatol
, vol.9
, pp. 265-273
-
-
Harrison, R.M.1
-
69
-
-
23844524271
-
Highly sensitive SIV plasma viral load assay: practical considerations, realistic performance expectations, and application to reverse engineering of vaccines for AIDS
-
Cline AN, Bess JW, Piatak M Jr, Lifson JD, (2005) Highly sensitive SIV plasma viral load assay: practical considerations, realistic performance expectations, and application to reverse engineering of vaccines for AIDS. J Med Primatol 34: 303-312.
-
(2005)
J Med Primatol
, vol.34
, pp. 303-312
-
-
Cline, A.N.1
Bess, J.W.2
Piatak Jr., M.3
Lifson, J.D.4
-
70
-
-
68649090780
-
Monitoring HIV vaccine trial participants for primary infection: studies in the SIV/macaque model
-
Whitney JB, Luedemann C, Bao S, Miura A, Rao SS, et al. (2009) Monitoring HIV vaccine trial participants for primary infection: studies in the SIV/macaque model. Aids 23: 1453-1460.
-
(2009)
Aids
, vol.23
, pp. 1453-1460
-
-
Whitney, J.B.1
Luedemann, C.2
Bao, S.3
Miura, A.4
Rao, S.S.5
-
71
-
-
0037007670
-
HIV preferentially infects HIV-specific CD4+ T cells
-
Douek DC, Brenchley JM, Betts MR, Ambrozak DR, Hill BJ, et al. (2002) HIV preferentially infects HIV-specific CD4+ T cells. Nature 417: 95-98.
-
(2002)
Nature
, vol.417
, pp. 95-98
-
-
Douek, D.C.1
Brenchley, J.M.2
Betts, M.R.3
Ambrozak, D.R.4
Hill, B.J.5
-
72
-
-
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
-
73
-
-
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
-
74
-
-
15044338758
-
Two-sample tests for comparing intra-individual genetic sequence diversity between populations
-
Gilbert PB, Rossini AJ, Shankarappa R, (2005) Two-sample tests for comparing intra-individual genetic sequence diversity between populations. Biometrics 61: 106-117.
-
(2005)
Biometrics
, vol.61
, pp. 106-117
-
-
Gilbert, P.B.1
Rossini, A.J.2
Shankarappa, R.3
-
75
-
-
1042304216
-
APE: Analyses of Phylogenetics and Evolution in R language
-
Paradis E, Claude J, Strimmer K, (2004) APE: Analyses of Phylogenetics and Evolution in R language. Bioinformatics 20: 289-290.
-
(2004)
Bioinformatics
, vol.20
, pp. 289-290
-
-
Paradis, E.1
Claude, J.2
Strimmer, K.3
-
76
-
-
0030807655
-
BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data
-
Gascuel O, (1997) BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol Biol Evol 14: 685-695.
-
(1997)
Mol Biol Evol
, vol.14
, pp. 685-695
-
-
Gascuel, O.1
-
77
-
-
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
-
78
-
-
60749124402
-
Highly complex neutralization determinants on a monophyletic lineage of newly transmitted subtype C HIV-1 Env clones from India
-
Kulkarni SS, Lapedes A, Tang H, Gnanakaran S, Daniels MG, et al. (2009) Highly complex neutralization determinants on a monophyletic lineage of newly transmitted subtype C HIV-1 Env clones from India. Virology 385: 505-520.
-
(2009)
Virology
, vol.385
, pp. 505-520
-
-
Kulkarni, S.S.1
Lapedes, A.2
Tang, H.3
Gnanakaran, S.4
Daniels, M.G.5
|