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  4. SEEDS: Data driven inference of structural model errors and unknown inputs for dynamic systems biology
 
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2021
Journal Article
Titel

SEEDS: Data driven inference of structural model errors and unknown inputs for dynamic systems biology

Abstract
Dynamic models formulated as ordinary differential equations (ODEs) can provide information about the mechanistic and causal interactions in biological systems to guide targeted interventions and to design further experiments. Inaccurate knowledge about the structure, functional form and parameters of interactions is a major obstacle to mechanistic modelling. A further challenge is the open nature of biological systems which receive unknown inputs from their environment. The R-package SEEDS implements two recently developed algorithms to infer structural model errors and unknown inputs from output measurements. This information can facilitate efficient model recalibration as well as experimental design in the case of misfits between the initial model and data.
Author(s)
Newmiwaka, Tobias
Engelhardt, Benjamin
Wendland, Philipp
Kahl, Dominik
Fröhlich, Holger
Fraunhofer-Institut für Algorithmen und Wissenschaftliches Rechnen SCAI
Kschischo, Maik
Zeitschrift
Bioinformatics
Funder
Deutsche Forschungsgemeinschaft DFG
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DOI
10.1093/bioinformatics/btaa786
Language
English
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Fraunhofer-Institut für Algorithmen und Wissenschaftliches Rechnen SCAI
Tags
  • artificial intelligen...

  • biomarkers

  • Data Science

  • precision medicine

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