Decomposing flux distributions into elementary flux modes in genome-scale metabolic networks. - Siu Hung Joshua Chan; Ping Ji 001 (Bioinform., 2011)

Estimating biological elementary flux modes that decompose a flux distribution by the minimal branching property. - Siu Hung Joshua Chan; Christian Solem; Peter Ruhdal Jensen; Ping Ji 001 (Bioinform., 2014)

Standardizing biomass reactions and ensuring complete mass balance in genome-scale metabolic models. - Siu Hung Joshua Chan; Jingyi Cai; Lin Wang 031; Margaret N. Simons-Senftle; Costas D. Maranas (Bioinform., 2017)

SteadyCom: Predicting microbial abundances while ensuring community stability. - Siu Hung Joshua Chan; Margaret N. Simons; Costas D. Maranas (PLoS Comput. Biol., 2017)

Accelerating flux balance calculations in genome-scale metabolic models by localizing the application of loopless constraints. - Siu Hung Joshua Chan; Lin Wang 031; Satyakam Dash; Costas D. Maranas (Bioinform., 2018)

Predicting Nash equilibria for microbial metabolic interactions. - Jingyi Cai; Tianwei Tan; Siu Hung Joshua Chan (Bioinform., 2021)

kb_DRAM: annotation and metabolic profiling of genomes with DRAM in KBase. - Michael Shaffer; Mikayla A. Borton; Ben Bolduc; José P. Faria; Rory M. Flynn; Parsa Ghadermazi; Janaka N. Edirisinghe; Elisha M. Wood-Charlson; Christopher S. Miller; Siu Hung Joshua Chan; Matthew B. Sullivan; Christopher S. Henry; et al. (Bioinform., 2023)

Microbial interactions from a new perspective: reinforcement learning reveals new insights into microbiome evolution. - Parsa Ghadermazi; Siu Hung Joshua Chan (Bioinform., 2024)