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Briefings in Bioinformatics Advance Access published online on October 31, 2006
Briefings in Bioinformatics, doi:10.1093/bib/bbl038
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© The Author 2006. Published by Oxford University Press. For Permissions, please email: journals.permissions@oxfordjournals.org
Received June 2, 2006
Accepted September 14, 2006

Original Papers

Methods and protocols for prediction of immunogenic epitopes

Joo Chuan Tong, Tin Wee Tan, and Shoba Ranganathan *

* To whom correspondence should be addressed.
Shoba Ranganathan, E-mail: shoba.ranganathan{at}mq.edu.au


  Abstract

T-cell recognition of peptide/major histocompatibility complex (MHC) is a prerequisite for cellular immunity. Recently, there has been an influx of bioinformatics tools to facilitate the identification of T-cell epitopes to specific MHC alleles. This article examines existing computational strategies for the study of peptide/MHC interactions. The most important bioinformatics tools and methods with relevance to the study of peptide/MHC interactions have been reviewed. We have also provided guidelines for predicting antigenic peptides based on the availability of existing experimental data.

Keywords: MHC; antigens/peptides/epitopes; prediction.

Joo Chuan Tong is a researcher at the Institute for Infocomm Research, Singapore. His research focuses on T-cell epitope prediction, classification methods, and protein structure prediction.

Tin Wee Tan is an Associate Professor of Biochemistry at the Yong Loo Lin School of Medicine, National University of Singapore, working on bioinformatics methods and applications, including grid computing.

Shoba Ranganathan is the Chair Professor of Bioinformatics at Macquarie University and Adjunct Professor, National University of Singapore, working on computational structural biology, immunoinformatics and comparative genome sequence analysisis.


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