Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: An information theoretic analysis

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

Volumn 90, Issue 15, 1993, Pages 7176-7180

  Korber, Bette T M ^a,b   Farber, Robert M ^a,b   Wolpert, David H ^a   Lapedes, Alan S ^a,b  

^a SANTA FE INSTITUTE   (United States)

^b LOS ALAMOS NATIONAL LABORATORY   (United States)

Author keywords

Convergent evolution; Peptide vaccine design

Indexed keywords

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

ENVELOPE PROTEIN; MUTANT PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; HUMAN IMMUNODEFICIENCY VIRUS 1; PHENOTYPE; PRIORITY JOURNAL; PROTEIN STRUCTURE; PROTEIN VARIANT; VIRUS ENVELOPE;

AMINO ACID SEQUENCE; GENES, ENV; HIV-1; MOLECULAR SEQUENCE DATA; MUTATION; PROBABILITY; SUPPORT, U.S. GOV'T, P.H.S.; VARIATION (GENETICS); VIRAL ENVELOPE PROTEINS;

EID: 0027297096     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.90.15.7176     Document Type: Article

References (28)

1. Goudsmit, J., Debouck, C., Meloen, R. H., Smit, L., Bakker, M. Asher, D. M., Wolff, A. V., Gibbs, C. J., Jr., & Gajdusek, D. C. (1988) Proc. Natl. Acad. Sci. USA 85, 4478-4482.
2. Palker, T. J., Clark, M. E., Langlois, A. J., Matthews, T. J., Weinhold, K. J., Randall, R. R., Bolognesi, D. P. & Haynes, B. F. (1988) Proc. Natl. Acad. Sci. USA 85, 1932-1936.
3. Javaherian, K., Langlois, A. J., LaRosa, G. J., Profy, A. T., Bolognesi, D. P., Herlihy, W. C., Putney, S. D. & Matthews, T. J. (1991) Science 250, 1590-1593.
4. Takahashi, H., Nakagawa, Y., Pendleton, C. D., Houghton, R. A., Yokomuro, K., Germain, R. N. & Berzofsky, J. A. (1992) Science 255, 333-336.
5. Hart, M. K., Palker, T. J., Matthews, T. J., Langlois, A. J., Lerche, N. W., Martin, M. E., Scearce, R. M., McDanal, C., Bolognesi, D. P. & Haynes, B. F. (1990) J. Immunol. 145, 2677-2685.
6. Westervelt, P., Gendelman, H. E. & Rainer, L. (1991) Proc. Natl. Acad. Sci. USA 88, 3097-3101.
7. Hwang, S. S., Boyle, T. J., Lyerly, H. K. & Cullen, B. R. (1991) Science 253, 71-74.
8. de Jong, J.-J., Goudsmit, J., Keulen, W., Klaver, B., Krone, W., Tersmette, M. & de Ronde, A. (1992) J. Virol. 66, 757-765.
9. Chesebro, B., Wehrly, K., Nishio, J. & Perryman, S. (1992) J. Virol. 66, 6547-6554.
10. Fouchier, R. A. M., Groenink, M., Kootstra, N. A., Tersmette, M., Huisman, H. G., Miedema, F. & Schuitemaker, H. (1992) J. Virol. 66, 3183-3187.
11. Westervelt, P., Trowbridge, D. B., Epstein, L. G., Blumberg, B. M., Li, Y., Hahn, B. H., Shaw, G. M., Price, R. W. & Ratner, L. (1992) J. Virol. 66, 2577-2582.
12. LaRosa, G. J., Davide, J. P., Weinhold, K., Waterbury, J. A., Profy, A. T., Lewis, J. A., Langlois, A. J., Dreesman, G. R., Boswell, R. N., Shadduck, P., Holley, L. H., Karplus, M., Bolognesi, D. P., Matthews, T. J., Emini, E. A. & Putney, S. D. (1990) Science 249, 932-935.
13. Myers, G., Korber, B. T. M., Berzofsky, J. A., Smith, R. F. & Pavlakis, G. F., eds. (1991) Human Retroviruses and AIDS 1991 (Theoret. Biol. Biophys. Group, Los Alamos Natl. Lab., Los Alamos, NM), Sect. 3.
14. Holley, L. H., Goudsmit, J. & Karplus, M. (1991) Proc. Natl. Acad. Sci. USA 88, 6800-6804.
15. Korber, B., Wolinsky, S., Haynes, B., Kunstman, K., Levy, R., Furtado, M., Otto, P. & Myers, G. (1992) AIDS Res. Hum. Retroviruses 8, 1461-1465.
16. Kuliback, S. (1959) Information Theory and Statistics (Wiley, New York).
17. Blahut, R. E. (1987) Information Theory and Statistics (Addison-Wesley, Reading, MA).
18. Lapedes, A., Barnes, C., Burks, C., Farber, R. & Sirotkin, K. (1989) in Computers and DNA: SFI Studies in the Sciences of Complexity, eds. Bell, G. & Marr, T. (Santa Fe Inst., Santa Fe, NM), Vol. 7, pp. 157-182.
19. Farber, R. M. & Lapedes, A. S. (1992) J. Mol. Biol. 226, 471-479.
20. Efron, B. (1979) SIAM Rev. 21, 460-480.
21. Efron, B. (1983) J. Am. Stat. Assoc. 78, 316-331.
22. Efron, B. & Tibshirani, R. (1991) Science 253, 390-395.
23. Chandrasekhar, K., Profy, A. T. & Dyson, H. J. (1991) Biochemistry 30, 9187-9194.
24. Faulkner, D. V. & Jurka, A. (1988) Trends Biol. Sci. 13, 321-322.
25. LaRosa, G. J., Weinhold, K., Profy, A. T., Langlois, A. J., Dreesman, G. R., Boswell, R. N., Shadduck, P., Bolognesi, D. P., Matthews, T. J., Emini, E. A. & Putney, S. D. (1991) Science 253, 1146.
26. Myers, G., Berzofsky, J. A., Rabson, A. B., Smith, T. F. & Wong-Staal, F., eds. (1990) Human Retroviruses and AIDS 1990 (Theoret. Biol. Biophys. Group, Los Alamos Natl. Lab., Los Alamos, NM), Sect. 3.
27. Wolfs, T. F. W., Zwart, G., Bakker, M., Valk, M., Kuiken, C. L. & Goudsmit, J. (1991) Virology 185, 195-205.
28. Wang, C. Y., Looney, D. J., Li, M. L., Walfield, A. M., Ye, J., Hosein, B., Tam, J. P. & Wong-Staal, F. (1991) Science 254, 285-288.