Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes

Valerie A. Walshe; Channa K. Hattotuwagama; Irini A. Doytchinova; MaiLee Wong; Isabel K. Macdonald; Arend Mulder; Frans H.J. Claas; Pierre Pellegrino; Jo Turner; Ian Williams; Emma L. Turnbull; Persephone Borrow; Darren R Flower

doi:10.1371/journal.pone.0008095

Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes

Valerie A. Walshe, Channa K. Hattotuwagama, Irini A. Doytchinova, MaiLee Wong, Isabel K. Macdonald, Arend Mulder, Frans H.J. Claas, Pierre Pellegrino, Jo Turner, Ian Williams, Emma L. Turnbull, Persephone Borrow, Darren R Flower

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

Abstract

Predictive models of peptide-Major Histocompatibility Complex (MHC) binding affinity are important components of modern computational immunovaccinology. Here, we describe the development and deployment of a reliable peptide-binding prediction method for a previously poorly-characterized human MHC class I allele, HLA-Cw*0102.

Original language	English
Article number	e8095
Number of pages	11
Journal	PLoS ONE
Volume	4
Issue number	11
DOIs	https://doi.org/10.1371/journal.pone.0008095
Publication status	Published - 2009

Bibliographical note

© 2009 Walshe et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Keywords

alleles
amino acid motifs
computational biology
edetic acid
epitopes
HIV-1
HLA-C antigens
histocompatibility antigens class I
humans
mononuclear leukocytes
major histocompatibility complex
statistical models
peptides
protein binding
tertiary protein structure

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10.1371/journal.pone.0008095

Integrating In Silico and In Vitro Analysis of Peptide Binding Affinity to HLA-Cw*0102
© 2009 Walshe et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Submitted manuscript, 309 KBLicence: CC BY 3.0

http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0008095

Cite this

Walshe, V. A., Hattotuwagama, C. K., Doytchinova, I. A., Wong, M., Macdonald, I. K., Mulder, A., Claas, F. H. J., Pellegrino, P., Turner, J., Williams, I., Turnbull, E. L., Borrow, P., & Flower, D. R. (2009). Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes. PLoS ONE, 4(11), Article e8095. https://doi.org/10.1371/journal.pone.0008095

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title = "Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes",

abstract = "Predictive models of peptide-Major Histocompatibility Complex (MHC) binding affinity are important components of modern computational immunovaccinology. Here, we describe the development and deployment of a reliable peptide-binding prediction method for a previously poorly-characterized human MHC class I allele, HLA-Cw*0102.",

keywords = "alleles, amino acid motifs, computational biology, edetic acid, epitopes, HIV-1, HLA-C antigens, histocompatibility antigens class I, humans, mononuclear leukocytes, major histocompatibility complex, statistical models, peptides, protein binding, tertiary protein structure",

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Walshe, VA, Hattotuwagama, CK, Doytchinova, IA, Wong, M, Macdonald, IK, Mulder, A, Claas, FHJ, Pellegrino, P, Turner, J, Williams, I, Turnbull, EL, Borrow, P & Flower, DR 2009, 'Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes', PLoS ONE, vol. 4, no. 11, e8095. https://doi.org/10.1371/journal.pone.0008095

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AU - Hattotuwagama, Channa K.

AU - Doytchinova, Irini A.

AU - Wong, MaiLee

AU - Macdonald, Isabel K.

AU - Mulder, Arend

AU - Claas, Frans H.J.

AU - Pellegrino, Pierre

AU - Turner, Jo

AU - Williams, Ian

AU - Turnbull, Emma L.

AU - Borrow, Persephone

AU - Flower, Darren R

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KW - histocompatibility antigens class I

KW - humans

KW - mononuclear leukocytes

KW - major histocompatibility complex

KW - statistical models

KW - peptides

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KW - tertiary protein structure

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Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes

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