Software development for metabolic network reconstruction and curation
Modelling predictions strongly depend on the quality of the underlying metabolic network reconstruction. These network reconstructions comprise hundreds to thousands of reactions which are typically assembled from metabolic pathway databases and are thus sensitive to annotation errors and error propagation. To address this issue we are supplying open-source software packages which offer coherent and reproducible curation workflows to the community. Recently, we developed CobraMod - a pathway-centric curation tool for constraint-based metabolic models.
Further reading:
Camborda S, Weder J-N, Töpfer N (2022) CobraMod: A pathway-centric curation tool for constraint-based metabolic models. Bioinformatics, https://doi.org/10.1093/bioinformatics/btac119
We are part of the Excellence Cluster on Plant Sciences - CEPLAS and embedded in Research Area 4.
