Methods for comparing the diversity of samples of the T cell receptor repertoire

Analysis of T cell receptor (TCR) data has become a crucial element in many studies aimed at better understanding the evolution of the T cell repertoire and the role of TCR diversity in immune responses. In this paper we focus on comparing the diversity between samples of the TCR repertoire. We disc...

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Bibliographic Details
Published in:Journal of immunological methods 2007-04, Vol.321 (1), p.182-195
Main Authors: Venturi, Vanessa, Kedzierska, Katherine, Turner, Stephen J., Doherty, Peter C., Davenport, Miles P.
Format: Article
Language:English
Subjects:
Animals
Antigenic Variation
Biological and medical sciences
CD8-Positive T-Lymphocytes - immunology
Complementarity Determining Regions - analysis
Data Interpretation, Statistical
Diversity
Fundamental and applied biological sciences. Psychology
Fundamental immunology
Immune memory
Immunologic Memory
Influenza A virus
Influenza A virus - immunology
L-Selectin - analysis
Mice
Mice, Inbred C57BL
Models, Statistical
Molecular immunology
Orthomyxoviridae Infections - immunology
Orthomyxoviridae Infections - virology
Peptide Fragments - immunology
Receptors, Antigen, T-Cell - analysis
Repertoire
Research Design
Sample Size
T cell receptor
T-Lymphocyte Subsets - immunology
Techniques
Time Factors
Viral Core Proteins - immunology
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Summary:Analysis of T cell receptor (TCR) data has become a crucial element in many studies aimed at better understanding the evolution of the T cell repertoire and the role of TCR diversity in immune responses. In this paper we focus on comparing the diversity between samples of the TCR repertoire. We discuss some of the limitations and potential problems inherent in some of the more popular approaches to comparing samples of the TCR repertoire and we suggest alternate methods that both avoid these problems and enrich the analysis of TCR data. Examples from published studies of the CD8 + T cell responses to the influenza A virus D bNP 366 and D bPA 224 epitopes in mice are used to demonstrate the implementation of these methods. One example involves a comparison between the central and effector memory T cell subsets, defined on the basis of CD62L expression, and the other examines changes in the TCR repertoire over time.
ISSN:0022-1759
1872-7905
DOI:10.1016/j.jim.2007.01.019