Encyclopedia of Systems Biology

2013 Edition
| Editors: Werner Dubitzky, Olaf Wolkenhauer, Kwang-Hyun Cho, Hiroki Yokota

Modeling Formalisms, Lymphocyte Dynamics and Repertoires

  • Véronique Thomas-Vaslin
  • Adrien SixEmail author
  • Bertrand Bellier
  • David Klatzmann
Reference work entry
DOI: https://doi.org/10.1007/978-1-4419-9863-7_715



Modeling a biological system can be done by representation of the structure of the objects (organs, lymphocytes populations, cells, etc.) with the help of ontologies and their relationship and their behavior in time (participation to processes like division, death, selection, migration, etc.). This biological modeling can help to develop further computational modeling and mathematical modeling. Representation of concepts (structure) and processes (behavior) can be done using UML state and transition visual diagrams.

Top-Down Versus Bottom-Up Modeling Approaches

In the top-down approach, knowledge of the system is established by global data mining, integration, and statistical analysis, from which the individual patterns or mechanisms are deduced.

In the bottom-up approach, basic components and mechanisms are...

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  1. Bersini H (2009) Object-oriented refactoring of existing immune models. Lecture notes in computer science, vol 5666/2009:27–40Google Scholar
  2. Chavali AK, Gianchandani EP et al (2008) Characterizing emergent properties of immunological systems with multi-cellular rule-based computational modeling. Trends Immunol 29(12):589–599CrossRefPubMedGoogle Scholar
  3. Cohn M, Mata J (2007) Quantitative modeling of immune response. Immunol Rev 216:1–236Google Scholar
  4. Flower DR, Timmis J (eds) (2007) In silico Immunology. Springer, New YorkGoogle Scholar
  5. Perelson AS (2002) Modelling viral and immune system dynamics. Nat Rev Immunol 2(1):28–36CrossRefPubMedGoogle Scholar
  6. Thomas-Vaslin V, Korthals-Altes H et al (2008) Comprehensive assessment and mathematical modeling of T-cell population dynamics and homeostasis. J Immunol 180:2240–2250PubMedGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  • Véronique Thomas-Vaslin
    • 1
  • Adrien Six
    • 1
    Email author
  • Bertrand Bellier
    • 1
  • David Klatzmann
    • 1
  1. 1.Immunology-Immunopathology-ImmunotherapyUPMC University Paris 06, UMR7211, CNRS, UMR7211, INSERM, U959ParisFrance