Abstract
Coping with Viral Diversity in HIV Vaccine Design: A Response to Nickle et al.
Highlights
Nickle et al [1] recently reported a computational method for HIV-1 vaccine antigen design; here we compare this method with our previously published vaccine antigen design method [2], using several criteria that we believe to be important for a successful vaccine candidate [2]
The COTþ method generates an antigen set consisting of one full-length synthetic sequence supplemented by a set of sequence fragments [1]
The Center of Tree (COT) sequence is computed based on a maximum likelihood phylogenetic tree inferred for a set of test sequences [4]
Summary
Nickle et al [1] recently reported a computational method for HIV-1 vaccine antigen design; here we compare this method with our previously published vaccine antigen design method [2], using several criteria that we believe to be important for a successful vaccine candidate [2]. The COTþ antigen design method uses the COT sequence as a foundation, and builds on it by sequential addition of protein fragments selected to provide enhanced potential epitope coverage [6].
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