-
1
-
-
78650235515
-
Tracking a century of global expansion and evolution of HIV to drive understanding and to combat disease
-
Tebit DM, Arts EJ. Tracking a century of global expansion and evolution of HIV to drive understanding and to combat disease. Lancet Infect Dis 2011; 11:45
-
(2011)
Lancet Infect Dis
, vol.11
, pp. 45
-
-
Tebit, D.M.1
Arts, E.J.2
-
2
-
-
0028346264
-
Support for dental HIV transmission
-
Hillis DM, Huelsenbeck JP. Support for dental HIV transmission. Nature 1994; 369:24
-
(1994)
Nature
, vol.369
, pp. 24
-
-
Hillis, D.M.1
Huelsenbeck, J.P.2
-
6
-
-
78650746800
-
Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences
-
Scaduto DI, Brown JM, Haaland WC, et al. Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences. Proc Natl Acad Sci U S A 2010; 107:21242
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 21242
-
-
Scaduto, D.I.1
Brown, J.M.2
Haaland, W.C.3
-
7
-
-
0034088330
-
Likelihood analysis of phylogenetic networks using directed graphical models
-
Strimmer K, Moulton V. Likelihood analysis of phylogenetic networks using directed graphical models. Mol Biol Evol 2000; 17:875
-
(2000)
Mol Biol Evol
, vol.17
, pp. 875
-
-
Strimmer, K.1
Moulton, V.2
-
8
-
-
0031026942
-
Networks and viral evolution
-
Fitch WM. Networks and viral evolution. J Mol Evol 1997; 44(suppl 1): S65
-
(1997)
J Mol Evol
, vol.44
, Issue.SUPPL. 1
-
-
Fitch, W.M.1
-
9
-
-
62749131195
-
Demonstration of sustained drug-resistant human immunodeficiency virus type 1 lineages circulating among treatment-naive individuals
-
Hue S, Gifford RJ, Dunn D, et al. Demonstration of sustained drug-resistant human immunodeficiency virus type 1 lineages circulating among treatment-naive individuals. J Virol 2009; 83:2645
-
(2009)
J Virol
, vol.83
, pp. 2645
-
-
Hue, S.1
Gifford, R.J.2
Dunn, D.3
-
10
-
-
79957564900
-
A novel methodology for largescale phylogeny partition
-
Prosperi MC, Ciccozzi M, Fanti I, et al. A novel methodology for largescale phylogeny partition. Nat Commun 2011; 2:321
-
(2011)
Nat Commun
, vol.2
, pp. 321
-
-
Prosperi, M.C.1
Ciccozzi, M.2
Fanti, I.3
-
11
-
-
70349655085
-
Molecular phylodynamics of the heterosexual HIV epidemic in the United Kingdom
-
Hughes GJ, Fearnhill E, Dunn D, et al. Molecular phylodynamics of the heterosexual HIV epidemic in the United Kingdom. PLoS Pathog 2009; 5:e1000590
-
(2009)
PLoS Pathog
, vol.5
-
-
Hughes, G.J.1
Fearnhill, E.2
Dunn, D.3
-
12
-
-
80053427855
-
Transmission network parameters estimated from HIV sequences for a nationwide epidemic
-
Leigh Brown AJ, Lycett SJ, Weinert L, et al. Transmission network parameters estimated from HIV sequences for a nationwide epidemic. J Infect Dis 2011; 204:1463
-
(2011)
J Infect Dis
, vol.204
, pp. 1463
-
-
Leigh Brown, A.J.1
Lycett, S.J.2
Weinert, L.3
-
13
-
-
77951882045
-
Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland
-
Kouyos RD, von Wyl V, Yerly S, et al. Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland. J Infect Dis 2010; 201:1488
-
(2010)
J Infect Dis
, vol.201
, pp. 1488
-
-
Kouyos, R.D.1
Von Wyl, V.2
Yerly, S.3
-
14
-
-
41549160713
-
Episodic sexual transmission of HIV revealed by molecular phylodynamics
-
Lewis F, Hughes GJ, Rambaut A, et al. Episodic sexual transmission of HIV revealed by molecular phylodynamics. PLoS Med 2008; 5:e50
-
(2008)
PLoS Med
, vol.5
-
-
Lewis, F.1
Hughes, G.J.2
Rambaut, A.3
-
15
-
-
84864075429
-
Simple epidemiological dynamics explain phylogenetic clustering of HIV from patients with recent infection
-
Volz EM, Koopman JS,Ward MJ, et al. Simple epidemiological dynamics explain phylogenetic clustering of HIV from patients with recent infection. PLoS Comput Biol 2012; 8:e1002552
-
(2012)
PLoS Comput Biol
, vol.8
-
-
Volz, E.M.1
Koopman, J.S.2
Ward, M.J.3
-
16
-
-
0000461280
-
Confidence limits on phylogenies: An approach using the bootstrap
-
Felsenstein J. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 1985; 38:783
-
(1985)
Evolution
, vol.38
, pp. 783
-
-
Felsenstein, J.1
-
17
-
-
84873474837
-
HIV sexual networks: The Montreal experience
-
doi:10.1515/1948-
-
Brenner B, Moodie EEM. HIV sexual networks: The Montreal experience. Stat Communiciations Infect Dis 2012; 4:. doi:10.1515/1948- 4690.1039
-
(2012)
Stat Communiciations Infect Dis
, vol.4
, pp. 46901039
-
-
Brenner, B.1
Eem, M.2
-
18
-
-
78649280326
-
HIV-1 drug resistance transmission networks in southwest Switzerland
-
Castro E, Khonkarly M, Ciuffreda D, et al. HIV-1 drug resistance transmission networks in southwest Switzerland. AIDS Res Hum Retroviruses 2010; 26:1233
-
(2010)
AIDS Res Hum Retroviruses
, vol.26
, pp. 1233
-
-
Castro, E.1
Khonkarly, M.2
Ciuffreda, D.3
-
19
-
-
58849110598
-
A public health model for the molecular surveillance of HIV transmission in San Diego
-
Smith DM, May SJ, Tweeten S, et al. A public health model for the molecular surveillance of HIV transmission in San Diego, California. AIDS 2009; 23:225
-
(2009)
California. AIDS
, vol.23
, pp. 225
-
-
Smith, D.M.1
May, S.J.2
Tweeten, S.3
-
20
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith TF, Waterman MS. Identification of common molecular subsequences. J Mol Biol 1981; 147:195
-
(1981)
J Mol Biol
, vol.147
, pp. 195
-
-
Smith, T.F.1
Waterman, M.S.2
-
21
-
-
0027157960
-
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
-
Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 1993; 10:512
-
(1993)
Mol Biol Evol
, vol.10
, pp. 512
-
-
Tamura, K.1
Nei, M.2
-
22
-
-
80054941662
-
Purifying selection can obscure the ancient age of viral lineages
-
Wertheim JO, Kosakovsky Pond SL. Purifying selection can obscure the ancient age of viral lineages. Mol Biol Evol 2011; 28:3355
-
(2011)
Mol Biol Evol
, vol.28
, pp. 3355
-
-
Wertheim, J.O.1
Kosakovsky Pond, S.L.2
-
23
-
-
0037526119
-
An assessment of preferential attachment as a mechanism for human sexual network formation
-
Jones JH, Handcock MS. An assessment of preferential attachment as a mechanism for human sexual network formation. Proc Biol Sci 2003; 270:1123
-
(2003)
Proc Biol Sci
, vol.270
, pp. 1123
-
-
Jones, J.H.1
Handcock, M.S.2
-
25
-
-
0002114070
-
The place of mathematics in medical and biological statistics
-
Irwin JO. The place of mathematics in medical and biological statistics. J R Stat Soc Ser A 1963; 126:1
-
(1963)
J R Stat Soc ser A
, vol.126
, pp. 1
-
-
Irwin, J.O.1
-
26
-
-
14544275616
-
A genetic algorithm approach to detecting lineage-specific variation in selection pressure
-
Kosakovsky Pond SL, Frost SD. A genetic algorithm approach to detecting lineage-specific variation in selection pressure. Mol Biol Evol 2005; 22:478
-
(2005)
Mol Biol Evol
, vol.22
, pp. 478
-
-
Kosakovsky Pond, S.L.1
Frost, S.D.2
-
27
-
-
34249897545
-
Introduction of HIV type 1 into an isolated population: Molecular epidemiologic study from Greenland
-
Madsen TV, Leitner T, Lohse N, et al. Introduction of HIV type 1 into an isolated population: Molecular epidemiologic study from Greenland. AIDS Res Hum Retroviruses 2007; 23:675
-
(2007)
AIDS Res Hum Retroviruses
, vol.23
, pp. 675
-
-
Madsen, T.V.1
Leitner, T.2
Lohse, N.3
-
28
-
-
50249167691
-
Short communication: High prevalence of drug-resistant human immunodeficiency virus type 1 in treatment-naive patients in Greenland
-
Madsen TV, Lohse N, Jensen ES, et al. Short communication: High prevalence of drug-resistant human immunodeficiency virus type 1 in treatment-naive patients in Greenland. AIDS Res Hum Retroviruses 2008; 24:1073
-
(2008)
AIDS Res Hum Retroviruses
, vol.24
, pp. 1073
-
-
Madsen, T.V.1
Lohse, N.2
Jensen, E.S.3
-
29
-
-
0035425847
-
Nosocomial outbreak of multiple bloodborne viral infections
-
Yerly S, Quadri R, Negro F, et al. Nosocomial outbreak of multiple bloodborne viral infections. J Infect Dis 2001; 184:369
-
(2001)
J Infect Dis
, vol.184
, pp. 369
-
-
Yerly, S.1
Quadri, R.2
Negro, F.3
-
30
-
-
69649093344
-
Hiv-1 pol phylogenetic diversity and antiretroviral resistance mutations in treatment naive patients from centralwest brazil
-
Cardoso LP, Queiroz BB, Stefani MM. HIV-1 pol phylogenetic diversity and antiretroviral resistance mutations in treatment naive patients from CentralWest Brazil. J Clin Virol 2009; 46:134
-
(2009)
J Clin Virol
, vol.46
, pp. 134
-
-
Cardoso, L.P.1
Queiroz, B.B.2
Stefani, M.M.3
-
31
-
-
77449113353
-
Incidence of non-b subtypes of hiv-1 in galicia spain: High frequency and diversity of hiv-1 among men who have sex with men
-
Cuevas M, Fernandez-Garcia A, Sanchez-Garcia A, et al. Incidence of non-B subtypes of HIV-1 in Galicia, Spain: High frequency and diversity of HIV-1 among men who have sex with men. Euro Surveill 2009; 14
-
(2009)
Euro Surveill
, vol.14
-
-
Cuevas, M.1
Fernandez-Garcia, A.2
Sanchez-Garcia, A.3
-
32
-
-
84859759491
-
Rapid expansion of a hiv-1 subtype f cluster of recent origin among men who have sex with men in galicia, spain
-
Thomson MM, Fernandez-Garcia A, Delgado E, et al. Rapid expansion of a HIV-1 subtype F cluster of recent origin among men who have sex with men in Galicia, Spain. J Acquir Immune Defic Syndr 2012; 59:e49
-
(2012)
J Acquir Immune Defic Syndr
, vol.59
-
-
Thomson, M.M.1
Fernandez-Garcia, A.2
Delgado, E.3
-
33
-
-
58849137976
-
Phylogenetic reconstruction of transmission events from individuals with acute HIV infection: Toward more-rigorous epidemiological definitions
-
Brown AE, Gifford RJ, Clewley JP, et al. Phylogenetic reconstruction of transmission events from individuals with acute HIV infection: Toward more-rigorous epidemiological definitions. J Infect Dis 2009; 199:427
-
(2009)
J Infect Dis
, vol.199
, pp. 427
-
-
Brown, A.E.1
Gifford, R.J.2
Clewley, J.P.3
-
34
-
-
70449723682
-
Transmission of drug-resistant hiv-1 is stabilizing in europe
-
Vercauteren J, Wensing AM, van de Vijver DA, et al. Transmission of drug-resistant HIV-1 is stabilizing in Europe. J Infect Dis 2009; 200:1503
-
(2009)
J Infect Dis
, vol.200
, pp. 1503
-
-
Vercauteren, J.1
Wensing, A.M.2
Van De Vijver, D.A.3
-
35
-
-
84860456847
-
HIV transmissions during seroconversion contribute significantly to new infections in men who have sex with men in Australia
-
Chibo D, Kaye M, Birch C. HIV transmissions during seroconversion contribute significantly to new infections in men who have sex with men in Australia. AIDS Res Hum Retroviruses 2011; 28:460-4
-
(2011)
AIDS Res Hum Retroviruses
, vol.28
, pp. 460-464
-
-
Chibo, D.1
Kaye, M.2
Birch, C.3
-
36
-
-
67549144259
-
Primary drug resistance and transmission analysis of HIV-1 in acute and recent drug-naive seroconverters in Singapore
-
Lee CC, Sun YJ, Barkham T, et al. Primary drug resistance and transmission analysis of HIV-1 in acute and recent drug-naive seroconverters in Singapore. HIV Med 2009; 10:370
-
(2009)
HIV Med
, vol.10
, pp. 370
-
-
Lee, C.C.1
Sun, Y.J.2
Barkham, T.3
-
37
-
-
0038718854
-
The structure and function of complex networks
-
Newman MEJ. The structure and function of complex networks. SIAM Rev 2003; 45:167
-
(2003)
SIAM Rev
, vol.45
, pp. 167
-
-
Newman, M.E.J.1
-
38
-
-
0345884909
-
Inference of viral evolutionary rates from molecular sequences
-
Drummond A, Pybus OG, Rambaut A. Inference of viral evolutionary rates from molecular sequences. Adv Parasitol 2003; 54:331
-
(2003)
Adv Parasitol
, vol.54
, pp. 331
-
-
Drummond, A.1
Pybus, O.G.2
Rambaut, A.3
-
39
-
-
14444273439
-
Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy
-
Finzi D, Hermankova M, Pierson T, et al. Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy. Science 1997; 278:1295
-
(1997)
Science
, vol.278
, pp. 1295
-
-
Finzi, D.1
Hermankova, M.2
Pierson, T.3
-
40
-
-
84875220408
-
The implications of viral reservoirs on the elite control of HIV-1 infection
-
Buckheit RW III, Salgado M, Martins KO, et al. The implications of viral reservoirs on the elite control of HIV-1 infection. Cell Mol Life Sci 2012; 70:1009-19
-
(2012)
Cell Mol Life Sci
, vol.70
, pp. 1009-1019
-
-
Buckheit III, R.W.1
Salgado, M.2
Martins, K.O.3
-
41
-
-
32444450252
-
Human immunodeficiency virus type 1 env evolves toward ancestral states upon transmission to a new host
-
Herbeck JT, Nickle DC, Learn GH, et al. Human immunodeficiency virus type 1 env evolves toward ancestral states upon transmission to a new host. J Virol 2006; 80:1637
-
(2006)
J Virol
, vol.80
, pp. 1637
-
-
Herbeck, J.T.1
Nickle, D.C.2
Learn, G.H.3
-
42
-
-
84863863242
-
New insights into the evolutionary rate of HIV-1 at the within-host and epidemiological levels
-
Lythgoe KA, Fraser C. New insights into the evolutionary rate of HIV-1 at the within-host and epidemiological levels. Proc Biol Sci 2012; 279:3367
-
(2012)
Proc Biol Sci
, vol.279
, pp. 3367
-
-
Lythgoe, K.A.1
Fraser, C.2
-
43
-
-
84874679146
-
Phylogenetic relatedness of HIV-1 donor and recipient populations
-
Wertheim JO, Scheffler K, Choi JY, et al. Phylogenetic relatedness of HIV-1 donor and recipient populations. J Infect Dis 2013; 207:1181
-
(2013)
J Infect Dis
, vol.207
, pp. 1181
-
-
Wertheim, J.O.1
Scheffler, K.2
Choi, J.Y.3
-
44
-
-
84860550851
-
Using HIV transmission networks to investigate community effects in HIV prevention trials
-
Wertheim JO, Kosakovsky Pond SL, Little SJ, et al. Using HIV transmission networks to investigate community effects in HIV prevention trials. PLoS One 2011; 6:e27775
-
(2011)
PLoS One
, vol.6
-
-
Wertheim, J.O.1
Kosakovsky Pond, S.L.2
Little, S.J.3
-
45
-
-
0037443126
-
Transmission fitness of drug-resistant human immunodeficiency virus and the prevalence of resistance in the antiretroviral-treated population
-
Leigh Brown AJ, Frost SD, Mathews WC, et al. Transmission fitness of drug-resistant human immunodeficiency virus and the prevalence of resistance in the antiretroviral-treated population. J Infect Dis 2003; 187:683
-
(2003)
J Infect Dis
, vol.187
, pp. 683
-
-
Leigh Brown, A.J.1
Frost, S.D.2
Mathews, W.C.3
-
46
-
-
77954349748
-
Determinants of HIV-1 transmission in men who have sex with men: A combined clinical, epidemiological and phylogenetic approach
-
Fisher M, Pao D, Brown AE, et al. Determinants of HIV-1 transmission in men who have sex with men: A combined clinical, epidemiological and phylogenetic approach. AIDS 2010; 24:1739
-
(2010)
AIDS
, vol.24
, pp. 1739
-
-
Fisher, M.1
Pao, D.2
Brown, A.E.3
-
47
-
-
0032510178
-
Molecular epidemiological analysis of hiv in sexual networks in uganda
-
Yirrell DL, Pickering H, Palmarini G, et al. Molecular epidemiological analysis of HIV in sexual networks in Uganda. AIDS 1998; 12:285
-
(1998)
AIDS
, vol.12
, pp. 285
-
-
Yirrell, D.L.1
Pickering, H.2
Palmarini, G.3
-
49
-
-
79956318318
-
Using phylogeography to characterize the origins of the hiv-1 subtype f epidemic in romania
-
Mehta SR, Wertheim JO, Delport W, et al. Using phylogeography to characterize the origins of the HIV-1 subtype F epidemic in Romania. Infect Genet Evol 2011; 11:975
-
(2011)
Infect Genet Evol
, vol.11
, pp. 975
-
-
Mehta, S.R.1
Wertheim, J.O.2
Delport, W.3
-
50
-
-
53549119677
-
On the origin of hiv-1 subtype c in south america
-
Fontella R, Soares MA, Schrago CG. On the origin of HIV-1 subtype C in South America. AIDS 2008; 22:2001
-
(2008)
AIDS
, vol.22
, pp. 2001
-
-
Fontella, R.1
Soares, M.A.2
Schrago, C.G.3
|