Team
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Christoph Lüders
Institute of Mathematics
University of Kassel, Germany
External Homepage
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Ovidiu Radulescu
Systems Biology and Biological Physics
University of Montpellier, France
External
Homepage »
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Thomas Sturm
CNRS, Inria, and the University of Lorraine, France
MPI Informatics and Saarland University, Germany
External Homepage
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Further Contributors
Anna Meschede,
Matthias Neidhardt,
Hamid Rahkooy,
Andreas Weber †
Contact
Funding
ODEbase has been supported
by the interdisciplinary bilateral project
ANR-17-CE40-0036 and DFG-391322026
SYMBIONT.
Why ODEbase
Interdisciplinary competence
The derivation of adequate ODEs for the kinetics requires
combined biological and mathematical expertise.
Users can outsource this task to ODEbase.
Economic use of human resources
Symbolic computation input is pre-computed and directly available.
Availability
ODEbase models used and cited in the literature
can be conveniently reviewed on the basis of the original data
and re-used in follow-up publications.
Canonical reference
ODEbase fixes choices for the inevitable renaming of
species and parameters to common mathematical notation.
This facilitates comparability of results.
Benchmarking
Beyond its primary purpose,
ODEbase is perfectly suited to generate
benchmark sets for novel algorithms and software
in the field.
Cite ODEbase
When using ODEbase data in your publications, please
acknowledge our work by citing ODEbase as a data source as follows:
Christoph Lüders, Thomas Sturm, Ovidiu Radulescu.
ODEbase: A Repository of ODE Systems for Systems Biology, Bioinformatics Advances 2(1):vbac027, 2022.
Open access at doi:10.1093/bioadv/vbac027.
[bibtex]
Current database status
ODEbase currently holds 662 models in total,
of which 479 are rational,
199 are polynomial, and
71 have mass-action kinetics.
