ComMet (COMparison of METabolic states)

ComMet is a method based on genome-scale metabolic models for comparing different metabolic states

Features

• in-depth characterisation of flux states achievable by genome-scale metabolic models
• comparison of flux spaces from several conditions of interest
• identification of metabolically distinct network modules
• visualization of network modules as reaction and metabolic map

Dependencies

Please follow the instructions on the respective pages

Toolboxes

• COBRA
• Icasso

MATLAB functions

• insertrows
• knee point

Publication

Sarathy C, Breuer M, Kutmon M, Adriaens ME, Evelo CT, Arts ICW (2021) Comparison of metabolic states using genome-scale metabolic models. PLoS Comput Biol 17(11): e1009522. https://doi.org/10.1371/journal.pcbi.1009522

Preprint

Sarathy C et al., ComMet: A method for comparing metabolic states in genome-scale metabolic models. bioRxiv, Cold Spring Harbour Laboratory. 2020. https://doi.org/10.1101/2020.09.14.296145

Poster

Awarded Best Poster at ISMB 2020 (SysMod COSI)

Sarathy C et al., Identifying characteristic features of metabolic states using genome-scale metabolic models [version 1; not peer reviewed]. F1000Research 2020, 9(ISCB Comm J):1047 (poster) https://bit.ly/2GvgZsV

• Video summary: https://bit.ly/ISMB20_CS