Literature DB >> 22513720

Modelling deuterium labelling of lymphocytes with temporal and/or kinetic heterogeneity.

Rob J De Boer1, Alan S Perelson, Ruy M Ribeiro.   

Abstract

To study the kinetics of lymphocytes, models have divided the cell population into subpopulations with different turnover rates. These have been called 'kinetic heterogeneity models' so as to distinguish them from 'temporal heterogeneity models', in which a cell population may have different turnover rates at different times, e.g. when resting versus when activated. We model labelling curves for temporally heterogeneous populations, and predict that they exhibit equal biphasic up- and downslopes. We show when cells divide only once upon activation, these slopes are dominated by the slowest exponent, yielding underestimates of the average turnover rate. When cells undergo more than one division, the labelling curves allow fitting of the two exponential slopes in the temporal heterogeneity model. The same data can also be described with a two-compartment kinetic heterogeneity model. In both instances, the average turnover rate is correctly estimated. Because both models assume a different cell biology but describe the data equally well, the parameters of either model have no simple biological interpretation, as each parameter could reflect a combination of parameters of another biological process. Thus, even if there are sufficient data to reliably estimate all exponentials, one can only accurately estimate an average turnover rate. We illustrate these issues by re-fitting labelling data from healthy and HIV-infected individuals.

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Year:  2012        PMID: 22513720      PMCID: PMC3405764          DOI: 10.1098/rsif.2012.0149

Source DB:  PubMed          Journal:  J R Soc Interface        ISSN: 1742-5662            Impact factor:   4.118


  33 in total

1.  Increased turnover of T lymphocytes in HIV-1 infection and its reduction by antiretroviral therapy.

Authors:  H Mohri; A S Perelson; K Tung; R M Ribeiro; B Ramratnam; M Markowitz; R Kost; A Hurley; L Weinberger; D Cesar; M K Hellerstein; D D Ho
Journal:  J Exp Med       Date:  2001-11-05       Impact factor: 14.307

2.  Rapid turnover of T cells in acute infectious mononucleosis.

Authors:  Derek C Macallan; Diana L Wallace; Andrew J Irvine; Becca Asquith; Andrew Worth; Hala Ghattas; Yan Zhang; George E Griffin; David F Tough; Peter C Beverley
Journal:  Eur J Immunol       Date:  2003-10       Impact factor: 5.532

3.  Measurement and modeling of human T cell kinetics.

Authors:  Derek C Macallan; Becca Asquith; Andrew J Irvine; Diana L Wallace; Andrew Worth; Hala Ghattas; Yan Zhang; George E Griffin; David F Tough; Peter C Beverley
Journal:  Eur J Immunol       Date:  2003-08       Impact factor: 5.532

4.  Different dynamics of CD4+ and CD8+ T cell responses during and after acute lymphocytic choriomeningitis virus infection.

Authors:  Rob J De Boer; Dirk Homann; Alan S Perelson
Journal:  J Immunol       Date:  2003-10-15       Impact factor: 5.422

5.  Quantifying cell turnover using CFSE data.

Authors:  Vitaly V Ganusov; Sergei S Pilyugin; Rob J de Boer; Kaja Murali-Krishna; Rafi Ahmed; Rustom Antia
Journal:  J Immunol Methods       Date:  2005-03       Impact factor: 2.303

Review 6.  Quantification of T-cell dynamics: from telomeres to DNA labeling.

Authors:  José A M Borghans; Rob J de Boer
Journal:  Immunol Rev       Date:  2007-04       Impact factor: 12.988

7.  Measurement of cell proliferation by labeling of DNA with stable isotope-labeled glucose: studies in vitro, in animals, and in humans.

Authors:  D C Macallan; C A Fullerton; R A Neese; K Haddock; S S Park; M K Hellerstein
Journal:  Proc Natl Acad Sci U S A       Date:  1998-01-20       Impact factor: 11.205

8.  Turnover rates of B cells, T cells, and NK cells in simian immunodeficiency virus-infected and uninfected rhesus macaques.

Authors:  Rob J De Boer; Hiroshi Mohri; David D Ho; Alan S Perelson
Journal:  J Immunol       Date:  2003-03-01       Impact factor: 5.422

9.  The rescaling method for quantifying the turnover of cell populations.

Authors:  Sergei S Pilyugin; Vitaly V Ganusov; Kaja Murali-Krishna; Rafi Ahmed; Rustom Antia
Journal:  J Theor Biol       Date:  2003-11-21       Impact factor: 2.691

10.  Memory phenotype CD4 T cells undergoing rapid, nonburst-like, cytokine-driven proliferation can be distinguished from antigen-experienced memory cells.

Authors:  Souheil-Antoine Younes; George Punkosdy; Stephane Caucheteux; Tao Chen; Zvi Grossman; William E Paul
Journal:  PLoS Biol       Date:  2011-10-11       Impact factor: 8.029

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  15 in total

Review 1.  Tissue-Resident Memory T Cells in Mice and Humans: Towards a Quantitative Ecology.

Authors:  Sinead E Morris; Donna L Farber; Andrew J Yates
Journal:  J Immunol       Date:  2019-11-15       Impact factor: 5.422

2.  A mechanistic model for bromodeoxyuridine dilution naturally explains labelling data of self-renewing T cell populations.

Authors:  Vitaly V Ganusov; Rob J De Boer
Journal:  J R Soc Interface       Date:  2012-11-08       Impact factor: 4.118

3.  Quantifying T lymphocyte turnover.

Authors:  Rob J De Boer; Alan S Perelson
Journal:  J Theor Biol       Date:  2013-01-09       Impact factor: 2.691

Review 4.  Human systems immunology: hypothesis-based modeling and unbiased data-driven approaches.

Authors:  Arnon Arazi; William F Pendergraft; Ruy M Ribeiro; Alan S Perelson; Nir Hacohen
Journal:  Semin Immunol       Date:  2013-01-29       Impact factor: 11.130

5.  Reconciling Estimates of Cell Proliferation from Stable Isotope Labeling Experiments.

Authors:  Raya Ahmed; Liset Westera; Julia Drylewicz; Marjet Elemans; Yan Zhang; Elizabeth Kelly; Rajko Reljic; Kiki Tesselaar; Rob J de Boer; Derek C Macallan; José A M Borghans; Becca Asquith
Journal:  PLoS Comput Biol       Date:  2015-10-05       Impact factor: 4.475

6.  Mathematical modeling of oncogenesis control in mature T-cell populations.

Authors:  Sebastian Gerdes; Sebastian Newrzela; Ingmar Glauche; Dorothee von Laer; Martin-Leo Hansmann; Ingo Roeder
Journal:  Front Immunol       Date:  2013-11-21       Impact factor: 7.561

Review 7.  Mathematics in modern immunology.

Authors:  Mario Castro; Grant Lythe; Carmen Molina-París; Ruy M Ribeiro
Journal:  Interface Focus       Date:  2016-04-06       Impact factor: 3.906

8.  Temporal fate mapping reveals age-linked heterogeneity in naive T lymphocytes in mice.

Authors:  Thea Hogan; Graeme Gossel; Andrew J Yates; Benedict Seddon
Journal:  Proc Natl Acad Sci U S A       Date:  2015-11-25       Impact factor: 11.205

9.  Which of our modeling predictions are robust?

Authors:  Rob J De Boer
Journal:  PLoS Comput Biol       Date:  2012-07-26       Impact factor: 4.475

Review 10.  Dynamical and Mechanistic Reconstructive Approaches of T Lymphocyte Dynamics: Using Visual Modeling Languages to Bridge the Gap between Immunologists, Theoreticians, and Programmers.

Authors:  Véronique Thomas-Vaslin; Adrien Six; Jean-Gabriel Ganascia; Hugues Bersini
Journal:  Front Immunol       Date:  2013-10-01       Impact factor: 7.561

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