SBMLComp

This is an academic-tailored web application to analyze, compare and curate constraint-based metabolic models.

Selected models:



What we do

  • Biolog Phenotype Microarray Plates

    Growth phenotype

    The model's ability to grow is tested on media inspired by Biolog Phenotype Microarray Plates: a total of 383 sources of carbon, nitrogen, phosphorus, and sulfur.

  • Pathway activity

    Reactions mapping

    Models' reactions are mapped against BioCyc and Kegg databases, quickly calculating pathways/modules completeness and finding missing reactions.

  • Pathway activity

    Pathway activity

    Flux Variability Analysis (FVA) identifies the most active pathways/modules when the model grows at the maximum rate.

  • Reaction intersections from metabolic models

    Reaction intersections

    The intersection of reactions is calculated for every combination of 2 models - even if models were created using different identifiers on metabolites and reactions.

  • Metric Multidimensional scaling

    Multidimensional scaling

    The similarity among all models is visualized in mMDS plots, both for the growth phenotype and reactions intersection.

  • Biolog Phenotype Microarray Plates

    Export models

    A new model can be created by incorporating to the original model reactions from the reference databases or/and reactions from other models.


Tutorials

Citing SBMLComp

SBMLComp: a web application for curation and comparison of constraint-based metabolic models. (in publication process)


Funding: This project (Nr. 100386143) is co-financed by means of taxation based on the budget adopted by the representatives of the Landtag of Saxony.