COMPASS identifies T-cell subsets correlated with clinical outcomes.

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Serval ID
serval:BIB_8FADB11D7063
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
COMPASS identifies T-cell subsets correlated with clinical outcomes.
Journal
Nature Biotechnology
Author(s)
Lin L., Finak G., Ushey K., Seshadri C., Hawn T.R., Frahm N., Scriba T.J., Mahomed H., Hanekom W., Bart P.A., Pantaleo G., Tomaras G.D., Rerks-Ngarm S., Kaewkungwal J., Nitayaphan S., Pitisuttithum P., Michael N.L., Kim J.H., Robb M.L., O'Connell R.J., Karasavvas N., Gilbert P., C De Rosa S., McElrath M.J., Gottardo R.
ISSN
1546-1696 (Electronic)
ISSN-L
1087-0156
Publication state
Published
Issued date
2015
Peer-reviewed
Oui
Volume
33
Number
6
Pages
610-616
Language
english
Abstract
Advances in flow cytometry and other single-cell technologies have enabled high-dimensional, high-throughput measurements of individual cells as well as the interrogation of cell population heterogeneity. However, in many instances, computational tools to analyze the wealth of data generated by these technologies are lacking. Here, we present a computational framework for unbiased combinatorial polyfunctionality analysis of antigen-specific T-cell subsets (COMPASS). COMPASS uses a Bayesian hierarchical framework to model all observed cell subsets and select those most likely to have antigen-specific responses. Cell-subset responses are quantified by posterior probabilities, and human subject-level responses are quantified by two summary statistics that describe the quality of an individual's polyfunctional response and can be correlated directly with clinical outcome. Using three clinical data sets of cytokine production, we demonstrate how COMPASS improves characterization of antigen-specific T cells and reveals cellular 'correlates of protection/immunity' in the RV144 HIV vaccine efficacy trial that are missed by other methods. COMPASS is available as open-source software.
Pubmed
Web of science
Open Access
Yes
Create date
06/07/2015 14:42
Last modification date
20/08/2019 15:53
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