Personalized signaling models for personalized treatments

Molecular Systems Biology
Julio Saez-Rodriguez, Nils Blüthgen

Abstract

Dynamic mechanistic models, that is, those that can simulate behavior over time courses, are a cornerstone of molecular systems biology. They are being used to model molecular mechanisms with varying degrees of granularity-from elementary reactions to causal links-and to describe these systems by various dynamic mathematical frameworks, such as Boolean networks or systems of differential equations. The models can be based exclusively on experimental data, or on prior knowledge of the underlying biological processes. The latter are typically generic, but can be adapted to a certain context, such as a particular cell type, after training with context-specific data. Dynamic mechanistic models that are based on biological knowledge have great potential for modeling specific systems, because they require less data for training to provide biological insight in particular into causal mechanisms, and to extrapolate to scenarios that are outside the conditions they have been trained on.

References

Jun 12, 2013·Molecular Systems Biology·Bertram KlingerNils Blüthgen
Dec 15, 2016·Cancer Research·Dana SilverbushJasmin Fisher
Sep 28, 2017·ACS Chemical Neuroscience·Anne Marie BarretteMarc R Birtwistle

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Citations

Dec 4, 2020·FEBS Letters·Bence Szalai, Julio Saez-Rodriguez
Dec 19, 2020·PLoS Computational Biology·Ali KhalilimeybodiJeffrey J Saucerman
Jan 23, 2021·BioData Mining·Kinza RianJoaquín Dopazo
Nov 5, 2021·PLoS Computational Biology·Mathurin DorelNils Blüthgen

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Methods Mentioned

BETA
xenograft
biopsy

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