Consensus and ancestral state HIV vaccines [2]

David C. Nickle; Mark A. Jensen; Geoffrey S. Gottlieb; Daniel Shriner; Gerald H. Learn; Allen G. Rodrigo; James I. Mullins; F. Gao; T. Bhattacharya; B. Gaschen; J. Taylor; J. P. Moore; V. Novitsky; K. Yusim; D. Lang; B. Foley; S. Beddows; M. Alam; B. Haynes; B. H. Hahn; B. Korber

Consensus and ancestral state HIV vaccines [2]

David C. Nickle^*, Mark A. Jensen, Geoffrey S. Gottlieb, Daniel Shriner, Gerald H. Learn, Allen G. Rodrigo, James I. Mullins, F. Gao, T. Bhattacharya, B. Gaschen, J. Taylor, J. P. Moore, V. Novitsky, K. Yusim, D. Lang, B. Foley, S. Beddows, M. Alam, B. Haynes, B. H. HahnB. Korber

^*Corresponding author for this work

Research output: Contribution to journal › Letter › peer-review

117 Citations (Scopus)

Abstract

The review by B. Gaschen et al. (Diversity considerations in HIV-1 vaccine selection, 28 June, p. 2354) describes two computational methods (consensus and ancestral state) being considered for developing vaccine antigens against HIV. These methods attempt to minimize the amount of sequence divergence (distance) between the antigen and contemporaneously circulating viruses. Both methods do well at minimizing these distances when the sequences used to estimate the potential vaccine come from a symmetric phylogeny (panels A and B of the figure), similar to those examined in their Review. However, if sequences used to estimate the potential vaccine come from asymmetric phylogenies (panels C and D), then both methods generate sequences that poorly minimize these distances, making for a potentially poor vaccine antigen.

Original language	English
Pages (from-to)	1515-1518
Number of pages	4
Journal	Science
Volume	299
Issue number	5612
Publication status	Published - 7 Mar 2003
Externally published	Yes

Cite this

@article{414e463a2ea3451ba1ef591ea7ae87da,

title = "Consensus and ancestral state HIV vaccines [2]",

abstract = "The review by B. Gaschen et al. (Diversity considerations in HIV-1 vaccine selection, 28 June, p. 2354) describes two computational methods (consensus and ancestral state) being considered for developing vaccine antigens against HIV. These methods attempt to minimize the amount of sequence divergence (distance) between the antigen and contemporaneously circulating viruses. Both methods do well at minimizing these distances when the sequences used to estimate the potential vaccine come from a symmetric phylogeny (panels A and B of the figure), similar to those examined in their Review. However, if sequences used to estimate the potential vaccine come from asymmetric phylogenies (panels C and D), then both methods generate sequences that poorly minimize these distances, making for a potentially poor vaccine antigen.",

author = "Nickle, {David C.} and Jensen, {Mark A.} and Gottlieb, {Geoffrey S.} and Daniel Shriner and Learn, {Gerald H.} and Rodrigo, {Allen G.} and Mullins, {James I.} and F. Gao and T. Bhattacharya and B. Gaschen and J. Taylor and Moore, {J. P.} and V. Novitsky and K. Yusim and D. Lang and B. Foley and S. Beddows and M. Alam and B. Haynes and Hahn, {B. H.} and B. Korber",

year = "2003",

month = mar,

day = "7",

language = "English",

volume = "299",

pages = "1515--1518",

journal = "Science",

issn = "0036-8075",

publisher = "American Association for the Advancement of Science",

number = "5612",

}

TY - JOUR

T1 - Consensus and ancestral state HIV vaccines [2]

AU - Nickle, David C.

AU - Jensen, Mark A.

AU - Gottlieb, Geoffrey S.

AU - Shriner, Daniel

AU - Learn, Gerald H.

AU - Rodrigo, Allen G.

AU - Mullins, James I.

AU - Gao, F.

AU - Bhattacharya, T.

AU - Gaschen, B.

AU - Taylor, J.

AU - Moore, J. P.

AU - Novitsky, V.

AU - Yusim, K.

AU - Lang, D.

AU - Foley, B.

AU - Beddows, S.

AU - Alam, M.

AU - Haynes, B.

AU - Hahn, B. H.

AU - Korber, B.

PY - 2003/3/7

Y1 - 2003/3/7

N2 - The review by B. Gaschen et al. (Diversity considerations in HIV-1 vaccine selection, 28 June, p. 2354) describes two computational methods (consensus and ancestral state) being considered for developing vaccine antigens against HIV. These methods attempt to minimize the amount of sequence divergence (distance) between the antigen and contemporaneously circulating viruses. Both methods do well at minimizing these distances when the sequences used to estimate the potential vaccine come from a symmetric phylogeny (panels A and B of the figure), similar to those examined in their Review. However, if sequences used to estimate the potential vaccine come from asymmetric phylogenies (panels C and D), then both methods generate sequences that poorly minimize these distances, making for a potentially poor vaccine antigen.

AB - The review by B. Gaschen et al. (Diversity considerations in HIV-1 vaccine selection, 28 June, p. 2354) describes two computational methods (consensus and ancestral state) being considered for developing vaccine antigens against HIV. These methods attempt to minimize the amount of sequence divergence (distance) between the antigen and contemporaneously circulating viruses. Both methods do well at minimizing these distances when the sequences used to estimate the potential vaccine come from a symmetric phylogeny (panels A and B of the figure), similar to those examined in their Review. However, if sequences used to estimate the potential vaccine come from asymmetric phylogenies (panels C and D), then both methods generate sequences that poorly minimize these distances, making for a potentially poor vaccine antigen.

UR - http://www.scopus.com/inward/record.url?scp=0037423791&partnerID=8YFLogxK

M3 - Letter

SN - 0036-8075

VL - 299

SP - 1515

EP - 1518

JO - Science

JF - Science

IS - 5612

ER -

Consensus and ancestral state HIV vaccines [2]

Abstract

Other files and links

Fingerprint

Cite this