Imperial College London
Alternate

Dr Becca Asquith

Faculty of Medicine, Department of Infectious Disease

Professor of Mathematical Immunology
 
 
 
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Contact

 

+44 (0)20 7594 3731b.asquith

 
 
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Location

 

112Wright Fleming WingSt Mary's Campus

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Summary

 

Publications

Citation

BibTex format

@article{Boelen:2016:10.1371/journal.pcbi.1004796,
author = {Boelen, LP and O'Neill, PK and Quigley, KJ and Reynolds, CJ and Maillere, B and Robinson, JH and Lertmemongkolchai, G and Altmann, D and Boyton, R and Asquith, R},
doi = {10.1371/journal.pcbi.1004796},
journal = {PLOS Computational Biology},
title = {BIITE: A Tool to Determine HLA Class II Epitopes from T Cell ELISpot Data},
url = {http://dx.doi.org/10.1371/journal.pcbi.1004796},
volume = {12},
year = {2016}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - Activation of CD4+ T cells requires the recognition of peptides that are presented by HLA class II molecules and can be assessed experimentally using the ELISpot assay. However, even given an individual’s HLA class II genotype, identifying which class II molecule is responsible for a positive ELISpot response to a given peptide is not trivial. The two main difficulties are the number of HLA class II molecules that can potentially be formed in a single individual (3–14) and the lack of clear peptide binding motifs for class II molecules. Here, we present a Bayesian framework to interpret ELISpot data (BIITE: Bayesian Immunogenicity Inference Tool for ELISpot); specifically BIITE identifies which HLA-II:peptide combination(s) are immunogenic based on cohort ELISpot data. We apply BIITE to two ELISpot datasets and explore the expected performance using simulations. We show this method can reach high accuracies, depending on the cohort size and the success rate of the ELISpot assay within the cohort.
AU  - Boelen,LP
AU  - O'Neill,PK
AU  - Quigley,KJ
AU  - Reynolds,CJ
AU  - Maillere,B
AU  - Robinson,JH
AU  - Lertmemongkolchai,G
AU  - Altmann,D
AU  - Boyton,R
AU  - Asquith,R
DO  - 10.1371/journal.pcbi.1004796
PY  - 2016///
SN  - 1553-734X
TI  - BIITE: A Tool to Determine HLA Class II Epitopes from T Cell ELISpot Data
T2  - PLOS Computational Biology
UR  - http://dx.doi.org/10.1371/journal.pcbi.1004796
UR  - http://hdl.handle.net/10044/1/30795
VL  - 12
ER  -
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