Coalescent estimates of HIV-1 generation time in vivo

Proceedings of the National Academy of Sciences of the United States of America

Volumn 96, Issue 5, 1999, Pages 2187-2191

  Rodrigo, Allen G ^a   Shpaer, Eugene G ^b   Delwart, Eric L ^c   Iversen, Astrid K N ^d   Gallo, Michael V ^e   Brojatsch, Jürgen ^f   Hirsch, Martin S ^g   Walker, Bruce D ^g   Mullins, James I ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

^b APPLIED BIOSYSTEMS   (United States)

^c AARON DIAMOND AIDS RESEARCH CENTER   (United States)

^d Rigshospitalet   (Denmark)

^e Ontogeny Inc   (United States)

^f HARVARD MEDICAL SCHOOL   (United States)

^g MASSACHUSETTS GENERAL HOSPITAL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; DYNAMICS; HUMAN IMMUNODEFICIENCY VIRUS 1; METHODOLOGY; MODEL; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SIMULATION; VIROGENESIS;

DNA, VIRAL; EVOLUTION, MOLECULAR; GENES, ENV; HIV SEROPOSITIVITY; HIV-1; HOMOSEXUALITY, MALE; HUMANS; MALE; MODELS, GENETIC; MODELS, STATISTICAL; MOLECULAR SEQUENCE DATA; PHYLOGENY; TIME FACTORS; VIRUS REPLICATION;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 0033515016     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.96.5.2187     Document Type: Article

References (37)

1. Perelson, A. S., Neumann, A. U., Markowitz, M., Leonard, J. M. & Ho, D. D. (1996) Science 271, 1582-1586.
2. Rodrigo, A. G. & Felsenstein, J. (1999) in Coalescent Approaches to HIV Population Genetics, ed. Crandall, K. (Johns Hopkins Univ. Press, Baltimore).
3. Kingman, J. F. C. (1982) J. Appl. Probability 19A, 27-43.
4. Kingman, J. F. C. (1982) Stochastic Processes Appl. 13, 235-248.
5. Slatkin, M. & Hudson, R. R. (1991) Genetics 129, 555-562.
6. Ho, D. D., Rota, T. R., Schooley, R. T., Kaplan, J. C., Allan, J. D., Groopman, J. E., Resnick, L., Felsenstein, D., Andrews, C. A. & Hirsch, M. S. (1985) N. Engl. J. Med. 313, 1493-1497.
7. Ho, D. D., Sarngadharan, M. G., Resnick, L., Dimarzoveronese, F., Rota, T. R. & Hirsch, M. S. (1985) Ann. Intern. Med. 103, 880-883.
8. Kusumi, K., Conway, B., Cunningham, S., Berson, A., Evans, C., Iversen, A. K. N., Colvin, D., Gallo, M. V., Coutre, S., Shpaer, E. G., et al. (1992) J. Virol. 66, 875-885.
9. Faulkner, D. V. & Jurka, J. (1988) Trends Biochem. Sci. 13, 321-322.
10. Kishino, H. & Hasegawa, M. (1989) J. Mol. Evol. 29, 170-179.
11. Saitou, N. & Nei, M. (1987) Mol. Biol. Evol. 4, 406-425.
12. Kumar, S., Tamura, K. & Nei, M. (1994) Comput. Appl. Biosci. 10, 189-191.
13. Jukes, T. H. & Cantor, C. R. (1969) in Evolution of Protein Molecules, ed. Munro, H. N. (Academic, New York), pp. 21-132.
14. Nei, M. & Gojobori, T. (1986) Mol. Biol. Evol. 3, 418-426.
15. Felsenstein, J. (1985) Evolution 39, 783-791.
16. Kuhner, M. K., Yamato, J. & Felsenstein, J. (1998) Genetics 149, 429-434.
17. Mansky, L. M. (1996) AIDS Res. Hum. Retroviruses 12, 307-314.
18. Leigh Brown, A. J. (1997) Proc. Natl. Acad. Sci. USA 94, 1862-1865.
19. Perelson, A. S., Essunger, P., Cao, Y., Vesanen, M., Hurley, A., Saksela, K., Markowitz, M. & Ho, D. D. (1997) Nature (London) 387, 188-191.
20. Griffiths, R. C. & Tavare, S. (1994) Phil. Trans. R. Soc. Land. B 344, 403-410.
21. Slatkin, M. & Maddison, W. P. (1989) Genetics 123, 603-613.
22. Slatkin, M. & Maddison, W. P. (1990) Genetics 126, 249-260.
23. Beerli, P. & Felsenstein, J. (1999) Genetics, in press.
24. Griffiths, R. C. & Marjoram, P. (1996) J. Computat. Biol. 3, 479-502.
25. Hudson, R. R. & Kaplan, N. L. (1985) Genetics 111, 147-164.
26. Hudson, R. R. (1987) Genet. Res. 50, 245-250.
27. Hudson, R. R. & Kaplan, N. L. (1988) Genetics 120, 831-840.
28. Krone, S. M. & Neuhauser, C. (1997) Theoret. Popul. Biol. 51.
29. Neuhauser, C. & Krone, S. M. (1997) Genetics 145, 519-534.
30. Kaplan, N. L., Darden, T. & Hudson, R. R. (1988) Genetics 120, 819-829.
31. Felsenstein, J., Kuhner, M. K., Yamamoto, J. & Beerli, P. (1999) IMS Lecture Series 33, in press.
32. Wolinsky, S. M., Korber, B. T. M., Neumann, A. U., Daniels, M., Kuntsman, K. J., Whetsell, A. J., Furtado, M. R., Cao, Y., Ho, D. D., Safrit, J. T. & Koup, R. A. (1996) Science 272, 537-542.
33. Golding, B. (1997) in Progress in Population Genetics and Human Evolution, eds. Donnelly, P. & Tavaré, S. (Springer, New York), Vol. 87.
34. Wright, S. (1938) Science 87, 430-431.
35. Nei, M. (1987) Molecular Evolutionary Genetics (Columbia Univ. Press, New York).
36. Felsenstein, J. (1981) J. Mol. Evol. 17, 368-376.
37. Kelly, J. K. (1994) Genet. Res. 64, 1-9.