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Entropy (Basel). 2021 Apr 08;23(4). doi: 10.3390/e23040437.

Modeling the Dynamics of T-Cell Development in the Thymus.

Entropy (Basel, Switzerland)

Philippe A Robert, Heike Kunze-Schumacher, Victor Greiff, Andreas Krueger

Affiliations

  1. Department of Immunology, University of Oslo, 0372 Oslo, Norway.
  2. Institute for Molecular Medicine, Goethe University, 60590 Frankfurt, Germany.

PMID: 33918050 PMCID: PMC8069328 DOI: 10.3390/e23040437

Abstract

The thymus hosts the development of a specific type of adaptive immune cells called T cells. T cells orchestrate the adaptive immune response through recognition of antigen by the highly variable T-cell receptor (TCR). T-cell development is a tightly coordinated process comprising lineage commitment, somatic recombination of Tcr gene loci and selection for functional, but non-self-reactive TCRs, all interspersed with massive proliferation and cell death. Thus, the thymus produces a pool of T cells throughout life capable of responding to virtually any exogenous attack while preserving the body through self-tolerance. The thymus has been of considerable interest to both immunologists and theoretical biologists due to its multi-scale quantitative properties, bridging molecular binding, population dynamics and polyclonal repertoire specificity. Here, we review experimental strategies aimed at revealing quantitative and dynamic properties of T-cell development and how they have been implemented in mathematical modeling strategies that were reported to help understand the flexible dynamics of the highly dividing and dying thymic cell populations. Furthermore, we summarize the current challenges to estimating

Keywords: T-cell development; T-cell receptor (TCR); agent-based models; complex systems; mathematical modeling; multi-scale models; ordinary differential equations (ODE); thymic selection

References

  1. Science. 2003 Oct 10;302(5643):255-9 - PubMed
  2. Blood. 2010 Feb 11;115(6):1137-44 - PubMed
  3. J Immunol. 2006 Jun 15;176(12):7371-8 - PubMed
  4. Nat Rev Immunol. 2009 Mar;9(3):207-13 - PubMed
  5. J Immunol. 2015 Feb 1;194(3):1057-1061 - PubMed
  6. J Immunol. 2010 Oct 15;185(8):4824-34 - PubMed
  7. Nat Immunol. 2009 Nov;10(11):1162-9 - PubMed
  8. Sci Rep. 2016 Nov 08;6:36159 - PubMed
  9. Pharmacol Ther. 2005 Dec;108(3):308-19 - PubMed
  10. Oncotarget. 2017 May 30;8(22):35542-35557 - PubMed
  11. Proc Natl Acad Sci U S A. 2014 Apr 29;111(17):6377-82 - PubMed
  12. Sci Signal. 2013 Oct 15;6(297):ra92 - PubMed
  13. Nat Immunol. 2010 Jun;11(6):477-85 - PubMed
  14. J Immunol. 1995 May 15;154(10):5103-13 - PubMed
  15. Science. 2015 Aug 7;349(6248):643-6 - PubMed
  16. J Immunol. 2008 Feb 15;180(4):2240-50 - PubMed
  17. J Immunol. 1998 Dec 15;161(12):6599-603 - PubMed
  18. BMC Immunol. 2011 Jun 20;12:36 - PubMed
  19. J Immunol. 2014 Jun 1;192(11):5151-9 - PubMed
  20. J Exp Med. 1994 Nov 1;180(5):1955-60 - PubMed
  21. Front Immunol. 2014 Feb 04;5:13 - PubMed
  22. Nature. 2006 Dec 7;444(7120):724-9 - PubMed
  23. Eur J Immunol. 2021 May;51(5):1166-1181 - PubMed
  24. J Exp Med. 2012 Jul 30;209(8):1409-17 - PubMed
  25. J Exp Med. 2015 Sep 21;212(10):1589-601 - PubMed
  26. J Immunol. 2010 Jul 1;185(1):284-93 - PubMed
  27. J Exp Med. 2001 Sep 3;194(5):591-9 - PubMed
  28. Nature. 1991 Jan 3;349(6304):71-4 - PubMed
  29. Curr Opin Cell Biol. 2013 Dec;25(6):730-4 - PubMed
  30. Proc Natl Acad Sci U S A. 2014 Jun 24;111(25):E2550-8 - PubMed
  31. J Immunol. 2002 Feb 15;168(4):1664-71 - PubMed
  32. J Exp Med. 2007 Oct 29;204(11):2513-20 - PubMed
  33. Proc Natl Acad Sci U S A. 2021 Mar 2;118(9): - PubMed
  34. Nat Immunol. 2019 Nov;20(11):1456-1468 - PubMed
  35. J Immunol. 2016 Oct 1;197(7):2673-2685 - PubMed
  36. J Theor Biol. 1995 Jul 7;175(1):103-26 - PubMed
  37. Genome Res. 2003 Nov;13(11):2485-97 - PubMed
  38. PLoS Biol. 2019 Mar 11;17(3):e2006716 - PubMed
  39. Immunology. 2007 Jun;121(2):207-15 - PubMed
  40. J Exp Med. 2013 Apr 8;210(4):675-81 - PubMed
  41. J Exp Med. 2013 Feb 11;210(2):269-85 - PubMed
  42. Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11903-8 - PubMed
  43. Cell Rep. 2020 Jul 21;32(3):107910 - PubMed
  44. J Immunol. 2009 Oct 1;183(7):4329-36 - PubMed
  45. Immunity. 2000 Apr;12(4):383-9 - PubMed
  46. PLoS Comput Biol. 2014 Jul 24;10(7):e1003616 - PubMed
  47. Immunogenetics. 2004 Aug;56(5):311-20 - PubMed
  48. Mol Cell. 2017 Nov 2;68(3):626-640.e5 - PubMed
  49. Eur J Immunol. 1990 Jun;20(6):1231-6 - PubMed
  50. Proc Natl Acad Sci U S A. 2013 Mar 19;110(12):4679-84 - PubMed
  51. Proc Natl Acad Sci U S A. 2014 Jul 8;111(27):9875-80 - PubMed
  52. PLoS One. 2010 Sep 30;5(9): - PubMed
  53. Nat Commun. 2018 Feb 8;9(1):561 - PubMed
  54. J R Soc Interface. 2013 Jan 6;10(78):20120774 - PubMed
  55. J Immunol. 2013 Sep 1;191(5):2384-92 - PubMed
  56. Nat Immunol. 2014 Sep;15(9):815-23 - PubMed
  57. Front Immunol. 2021 Feb 25;12:621824 - PubMed
  58. J Exp Med. 2001 Feb 5;193(3):365-74 - PubMed
  59. Cytometry A. 2010 Jun;77(6):564-70 - PubMed
  60. Nat Rev Immunol. 2019 Jan;19(1):7-18 - PubMed
  61. Front Immunol. 2017 Apr 25;8:474 - PubMed
  62. Bibl Haematol. 1984;(48):384-401 - PubMed
  63. J Immunol. 2018 Jul 15;201(2):516-523 - PubMed
  64. Bull Math Biophys. 1965 Dec;27(4):449-71 - PubMed
  65. PLoS Comput Biol. 2017 Mar 13;13(3):e1005417 - PubMed
  66. PLoS Biol. 2005 Nov;3(11):e356 - PubMed
  67. Immunity. 2010 Mar 26;32(3):426-36 - PubMed
  68. Blood. 2010 Mar 11;115(10):1897-905 - PubMed
  69. J Immunol. 1998 Apr 15;160(8):3666-72 - PubMed
  70. Cell Rep. 2018 Jul 31;24(5):1105-1112.e5 - PubMed
  71. Cell Cycle. 2019 Apr;18(8):795-808 - PubMed
  72. Immunol Lett. 2018 Dec;204:9-15 - PubMed
  73. Int Immunol. 1990;2(6):501-7 - PubMed
  74. J Exp Med. 1995 Apr 1;181(4):1519-26 - PubMed
  75. Front Immunol. 2014 Feb 14;5:19 - PubMed
  76. Nat Rev Immunol. 2021 Mar;21(3):162-176 - PubMed
  77. Nature. 1994 Nov 3;372(6501):100-3 - PubMed
  78. PLoS Comput Biol. 2014 Aug 07;10(8):e1003752 - PubMed
  79. Blood. 2010 Mar 11;115(10):1906-12 - PubMed
  80. Oncotarget. 2017 Mar 14;8(11):17551-17561 - PubMed
  81. PLoS Comput Biol. 2020 Aug 25;16(8):e1007910 - PubMed
  82. Nat Immunol. 2006 Sep;7(9):995-1003 - PubMed
  83. Cell Rep. 2021 Jan 12;34(2):108622 - PubMed
  84. Science. 2020 Feb 21;367(6480): - PubMed
  85. Nat Immunol. 2009 Nov;10(11):1155-61 - PubMed
  86. J Immunol. 2001 Nov 1;167(9):4966-73 - PubMed
  87. Nature. 2000 Jul 27;406(6794):422-6 - PubMed
  88. Nat Immunol. 2014 Jul;15(7):687-94 - PubMed
  89. J Exp Med. 1997 Oct 6;186(7):1149-58 - PubMed
  90. J Exp Med. 2003 Sep 15;198(6):957-62 - PubMed
  91. Nat Immunol. 2003 Feb;4(2):168-74 - PubMed
  92. PLoS Comput Biol. 2020 Dec 28;16(12):e1008428 - PubMed
  93. Immunol Rev. 2016 May;271(1):114-26 - PubMed
  94. J Immunol. 1993 May 15;150(10):4244-52 - PubMed
  95. Proc Natl Acad Sci U S A. 1990 Apr;87(7):2579-82 - PubMed
  96. J Exp Med. 2012 Jul 30;209(8):1401-8 - PubMed
  97. Arch Immunol Ther Exp (Warsz). 2018 Apr;66(2):81-88 - PubMed
  98. Trends Immunol. 2017 Feb;38(2):128-139 - PubMed
  99. Eur J Immunol. 2021 Mar 8;: - PubMed
  100. J Exp Med. 2009 Apr 13;206(4):761-78 - PubMed
  101. Nat Immunol. 2019 Feb;20(2):195-205 - PubMed
  102. J Immunol. 2014 Dec 15;193(12):5983-96 - PubMed
  103. J Theor Biol. 2007 Nov 21;249(2):384-94 - PubMed
  104. Nature. 1996 Sep 5;383(6595):81-5 - PubMed
  105. Trends Immunol. 2013 Oct;34(10):502-10 - PubMed
  106. Cell. 2016 Nov 17;167(5):1296-1309.e10 - PubMed
  107. Nat Immunol. 2020 Oct;21(10):1172-1180 - PubMed
  108. PLoS Comput Biol. 2007 Jan 26;3(1):e13 - PubMed
  109. Proc Natl Acad Sci U S A. 2005 Sep 20;102(38):13574-9 - PubMed
  110. J Immunol. 2003 Oct 1;171(7):3568-75 - PubMed
  111. Nat Immunol. 2005 Feb;6(2):143-51 - PubMed
  112. J Immunol. 2021 Jan 15;206(2):245-247 - PubMed
  113. J Immunol. 2014 Dec 1;193(11):5525-33 - PubMed
  114. Front Immunol. 2021 Feb 25;12:634367 - PubMed
  115. Protein Cell. 2018 Apr;9(4):322-332 - PubMed
  116. Immunol Cell Biol. 2016 Apr;94(4):357-66 - PubMed
  117. Semin Cell Dev Biol. 2018 Dec;84:2-10 - PubMed
  118. J Exp Med. 1997 Feb 3;185(3):377-83 - PubMed
  119. Cell. 1993 Oct 22;75(2):283-94 - PubMed
  120. Blood. 2007 Dec 15;110(13):4351-9 - PubMed
  121. Nature. 1985 Mar 7-13;314(6006):98-100 - PubMed
  122. J Immunol. 2000 May 15;164(10):5049-54 - PubMed
  123. Nat Immunol. 2015 Jun;16(6):628-34 - PubMed
  124. J Theor Biol. 2014 May 7;348:80-99 - PubMed
  125. Cell Tissue Kinet. 1988 Nov;21(6):381-7 - PubMed
  126. Elife. 2019 Dec 23;8: - PubMed
  127. Bioinformatics. 2014 May 1;30(9):1331-2 - PubMed
  128. Blood. 2015 Jan 15;125(3):457-64 - PubMed
  129. Arch Immunol Ther Exp (Warsz). 2017 Oct;65(5):401-420 - PubMed
  130. Proc Natl Acad Sci U S A. 2020 Oct 20;117(42):26020-26030 - PubMed
  131. Immunity. 2016 May 17;44(5):1091-101 - PubMed
  132. PLoS One. 2009 Dec 09;4(12):e8233 - PubMed
  133. Nat Commun. 2020 Jan 8;11(1):113 - PubMed
  134. Cell Rep. 2017 Oct 3;21(1):168-180 - PubMed
  135. Cell Syst. 2019 Oct 23;9(4):321-337.e9 - PubMed
  136. PLoS Comput Biol. 2009 Nov;5(11):e1000558 - PubMed
  137. Nature. 2017 Aug 24;548(7668):456-460 - PubMed
  138. Immunity. 2015 Nov 17;43(5):859-69 - PubMed
  139. Front Immunol. 2019 Oct 23;10:2520 - PubMed
  140. Immunity. 2014 Aug 21;41(2):181-90 - PubMed
  141. Proc Natl Acad Sci U S A. 1996 Dec 10;93(25):14747-52 - PubMed
  142. Immunity. 2012 Nov 16;37(5):840-53 - PubMed
  143. Immunity. 2015 Jun 16;42(6):1048-61 - PubMed
  144. J Immunol. 1999 Dec 15;163(12):6355-9 - PubMed
  145. Proc Natl Acad Sci U S A. 2013 Jul 30;110(31):E2905-14 - PubMed
  146. Nat Immunol. 2015 Nov;16(11):1114-23 - PubMed
  147. Mol Med Rep. 2015 Nov;12(5):7568-76 - PubMed
  148. Exp Cell Res. 1998 Apr 10;240(1):75-85 - PubMed
  149. Histochem Cell Biol. 2014 Dec;142(6):703-12 - PubMed
  150. Immunity. 1997 Oct;7(4):517-24 - PubMed
  151. Commun Biol. 2019 Nov 29;2:444 - PubMed

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