Systems biology of the structural proteome. - Elizabeth Brunk; Nathan Mih; Jonathan Monk; Zhen Zhang; Edward J. O'Brien; Spencer E. Bliven; Ke Chen; Roger L. Chang; Philip E. Bourne; Bernhard O. Palsson (BMC Syst. Biol., 2016)

A Multi-scale Computational Platform to Mechanistically Assess the Effect of Genetic Variation on Drug Responses in Human Erythrocyte Metabolism. - Nathan Mih; Elizabeth Brunk; Aarash Bordbar; Bernhard O. Palsson (PLoS Comput. Biol., 2016)

ssbio: a Python framework for structural systems biology. - Nathan Mih; Elizabeth Brunk; Ke Chen; Edward Catoiu; Anand Sastry 002; Erol S. Kavvas; Jonathan M. Monk; Zhen Zhang; Bernhard O. Palsson (Bioinform., 2018)

Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa. - Xin Fang; Jonathan M. Monk; Nathan Mih; Bin Du; Anand Sastry 002; Erol S. Kavvas; Yara Seif; Larry Smarr; Bernhard O. Palsson (BMC Syst. Biol., 2018)

A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types. - Yara Seif; Jonathan M. Monk; Nathan Mih; Hannah Tsunemoto; Saugat Poudel; Cristal Zuñiga; Jared Broddrick; Karsten Zengler; Bernhard O. Palsson (PLoS Comput. Biol., 2019)

Adaptations of Escherichia coli strains to oxidative stress are reflected in properties of their structural proteomes. - Nathan Mih; Jonathan M. Monk; Xin Fang; Edward Catoiu; David Heckmann; Laurence Yang 001; Bernhard O. Palsson (BMC Bioinform., 2020)

Bacterial fitness landscapes stratify based on proteome allocation associated with discrete aero-types. - Ke Chen; Amitesh Anand; Connor A. Olson; Troy E. Sandberg; Ye Gao; Nathan Mih; Bernhard O. Palsson (PLoS Comput. Biol., 2021)