-
1
-
-
0346373759
-
Unifying the ecological and evolutionary dynamics of pathogens
-
Grenfell BT, Pybus OG, Gog JR, Wood JL, Daly J, et al. (2004) Unifying the ecological and evolutionary dynamics of pathogens. Science 303: 327-332.
-
(2004)
Science
, vol.303
, pp. 327-332
-
-
Grenfell, B.T.1
Pybus, O.G.2
Gog, J.R.3
Wood, J.L.4
Daly, J.5
-
2
-
-
70449510163
-
Dengue 1 Diversity and Microevolution, French Polynesia 2001-2006: Connection with Epidemiology and Clinics
-
Descloux E, Cao-Lormeau V, Roche C, Lamballerie XD, (2009) Dengue 1 Diversity and Microevolution, French Polynesia 2001-2006: Connection with Epidemiology and Clinics. PLoS Negl Trop Dis 3: e493.
-
(2009)
PLoS Negl Trop Dis
, vol.3
-
-
Descloux, E.1
Cao-Lormeau, V.2
Roche, C.3
Lamballerie, X.D.4
-
3
-
-
77951432232
-
Intrahost evolutionary dynamics of canine influenza virus in naive and partially immune dogs
-
Hoelzer K, Murcia PR, Baillie GJ, Wood JL, Metzger SM, et al. (2010) Intrahost evolutionary dynamics of canine influenza virus in naive and partially immune dogs. J Virol 84: 5329-5335.
-
(2010)
J Virol
, vol.84
, pp. 5329-5335
-
-
Hoelzer, K.1
Murcia, P.R.2
Baillie, G.J.3
Wood, J.L.4
Metzger, S.M.5
-
4
-
-
0141565071
-
Patterns of intra- and interhost nonsynonomous variation reveal strong purifying selection in dengue virus
-
Holmes EC, (2003) Patterns of intra- and interhost nonsynonomous variation reveal strong purifying selection in dengue virus. J Virol 77: 11296-11298.
-
(2003)
J Virol
, vol.77
, pp. 11296-11298
-
-
Holmes, E.C.1
-
5
-
-
70349308777
-
Within-host variation of avian influenza viruses
-
Iqbal M, Xiao H, Baillie G, Warry A, Essen SC, et al. (2009) Within-host variation of avian influenza viruses. Philos Trans R Soc Lond B Biol Sci 364: 2739-2747.
-
(2009)
Philos Trans R Soc Lond B Biol Sci
, vol.364
, pp. 2739-2747
-
-
Iqbal, M.1
Xiao, H.2
Baillie, G.3
Warry, A.4
Essen, S.C.5
-
6
-
-
77953755568
-
Intra- and inter-host evolutionary dynamics of equine influenza virus
-
Murcia PR, Baillie GJ, Daly J, Elton D, Jervis C, et al. (2010) Intra- and inter-host evolutionary dynamics of equine influenza virus. J Virol 84: 6943-6954.
-
(2010)
J Virol
, vol.84
, pp. 6943-6954
-
-
Murcia, P.R.1
Baillie, G.J.2
Daly, J.3
Elton, D.4
Jervis, C.5
-
7
-
-
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 USA 105: 7552-7557.
-
(2008)
Proc Natl Acad Sci USA
, 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
-
8
-
-
77953292836
-
Dynamics and timing of in vivo mutations at Gag residue 242 during primary HIV-1 subtype C infection
-
Novitsky V, Wang R, Margolin L, Baca J, Moyo S, et al. (2010) Dynamics and timing of in vivo mutations at Gag residue 242 during primary HIV-1 subtype C infection. Virology 403: 37-46.
-
(2010)
Virology
, vol.403
, pp. 37-46
-
-
Novitsky, V.1
Wang, R.2
Margolin, L.3
Baca, J.4
Moyo, S.5
-
9
-
-
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
-
10
-
-
77956827156
-
Intrapatient variation of the respiratory syncytial virus attachment protein gene
-
Agoti CN, Mbisa JL, Bett A, Medley GF, Nokes DJ, et al. (2010) Intrapatient variation of the respiratory syncytial virus attachment protein gene. J Virol 84: 10425-10428.
-
(2010)
J Virol
, vol.84
, pp. 10425-10428
-
-
Agoti, C.N.1
Mbisa, J.L.2
Bett, A.3
Medley, G.F.4
Nokes, D.J.5
-
11
-
-
79953663928
-
Wide variation in the multiplicity of HIV-1 infection among injection drug users
-
Bar KJ, Li H, Chamberland A, Tremblay C, Routy JP, et al. (2010) Wide variation in the multiplicity of HIV-1 infection among injection drug users. J Virol 83: 3556-3567.
-
(2010)
J Virol
, vol.83
, pp. 3556-3567
-
-
Bar, K.J.1
Li, H.2
Chamberland, A.3
Tremblay, C.4
Routy, J.P.5
-
12
-
-
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
-
13
-
-
77951898043
-
A substantial transmission bottleneck among newly and recently HIV-1-infected injection drug users in St Petersburg, Russia
-
Masharsky AE, Dukhovlinova EN, Verevochkin SV, Toussova OV, Skochilov RV, et al. (2010) A substantial transmission bottleneck among newly and recently HIV-1-infected injection drug users in St Petersburg, Russia. J Infect Dis 201: 1697-1702.
-
(2010)
J Infect Dis
, vol.201
, pp. 1697-1702
-
-
Masharsky, A.E.1
Dukhovlinova, E.N.2
Verevochkin, S.V.3
Toussova, O.V.4
Skochilov, R.V.5
-
14
-
-
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
-
15
-
-
77649195668
-
Compartmentalization and clonal amplification of HIV-1 variants in the cerebrospinal fluid during primary infection
-
Schnell G, Price RW, Swanstrom R, Spudich S, (2010) Compartmentalization and clonal amplification of HIV-1 variants in the cerebrospinal fluid during primary infection. J Virol 84: 2395-2407.
-
(2010)
J Virol
, vol.84
, pp. 2395-2407
-
-
Schnell, G.1
Price, R.W.2
Swanstrom, R.3
Spudich, S.4
-
16
-
-
17744395033
-
Datamonkey: rapid detection of selective pressure on individual sites of codon alignments
-
Kosakovsky Pond SL, Frost SD, (2005) Datamonkey: rapid detection of selective pressure on individual sites of codon alignments. Bioinformatics 21: 2531-2533.
-
(2005)
Bioinformatics
, vol.21
, pp. 2531-2533
-
-
Kosakovsky Pond, S.L.1
Frost, S.D.2
-
17
-
-
0000732090
-
Evolution of protein molecules
-
In: Munro N, editors, Academic Press, New York
-
Jukes T, Cantor C, (1969) Evolution of protein molecules. In: Munro N, editors. Mammalian protein metabolism pp. 21-123 Academic Press, New York.
-
(1969)
Mammalian Protein Metabolism
, pp. 21-123
-
-
Jukes, T.1
Cantor, C.2
-
18
-
-
0019797407
-
Evolutionary trees from DNA sequences: A maximum likelihood approach
-
Felsenstein J, (1981) Evolutionary trees from DNA sequences: A maximum likelihood approach. J Mol Evol 17: 368-376.
-
(1981)
J Mol Evol
, vol.17
, pp. 368-376
-
-
Felsenstein, J.1
-
19
-
-
0019296687
-
A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
-
Kimura M, (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16: 111-120.
-
(1980)
J Mol Evol
, vol.16
, pp. 111-120
-
-
Kimura, M.1
-
21
-
-
0001677717
-
Controlling the false discovery rate: a practical and powerful approach to multiple testing
-
Benjamini Y, Hochberg Y, (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Series B Stat Methodol 57: 289-300.
-
(1995)
J R Stat Soc Series B Stat Methodol
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
24
-
-
70349303959
-
Bayesian statistical methods for genetic association studies
-
Stephens M, Balding DJ, (2009) Bayesian statistical methods for genetic association studies. Nat Rev Genet 10: 681-690.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 681-690
-
-
Stephens, M.1
Balding, D.J.2
-
25
-
-
70149113077
-
R: A Language and Environment for Statistical Computing
-
R Core Development Team, Vienna, Austria. Available:
-
R Core Development Team (2009) R: A Language and Environment for Statistical Computing. Vienna, Austria. Available: http://www.R-project.org.
-
(2009)
-
-
-
26
-
-
84950945692
-
Model selection and accounting for model uncertainty in graphical models using Occam's Window
-
Madigan D, Raftery AE, (1994) Model selection and accounting for model uncertainty in graphical models using Occam's Window. J Am Stat Assoc 89: 1535-1546.
-
(1994)
J Am Stat Assoc
, vol.89
, pp. 1535-1546
-
-
Madigan, D.1
Raftery, A.E.2
-
27
-
-
77956826336
-
Viral mutation rates
-
Sanjuán R, Nebot MR, Chirico N, Mansky LM, Belshaw R, (2010) Viral mutation rates. J Virol 84: 9733-9748.
-
(2010)
J Virol
, vol.84
, pp. 9733-9748
-
-
Sanjuán, R.1
Nebot, M.R.2
Chirico, N.3
Mansky, L.M.4
Belshaw, R.5
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