A bilevel optimization algorithm to identify enzymatic capacity constraints in metabolic networks. - Laurence Yang 001; Radhakrishnan Mahadevan; William R. Cluett (Comput. Chem. Eng., 2008)

Designing experiments from noisy metabolomics data to refine constraint-based models. - Laurence Yang 001; Radhakrishnan Mahadevan; William R. Cluett (ACC, 2010)

solveME: fast and reliable solution of nonlinear ME models. - Laurence Yang 001; Ding Ma 003; Ali Ebrahim; Colton J. Lloyd; Michael A. Saunders; Bernhard O. Palsson (BMC Bioinform., 2016)

Utilizing biomarkers to forecast quantitative metabolite concentration profiles in human red blood cells. - James T. Yurkovich; Laurence Yang 001; Bernhard O. Palsson (CCTA, 2017)

Biomarkers are used to predict quantitative metabolite concentration profiles in human red blood cells. - James T. Yurkovich; Laurence Yang 001; Bernhard O. Palsson (PLoS Comput. Biol., 2017)

Genome-scale estimation of cellular objectives. - Laurence Yang 001; José Bento 001; Jean-Christophe Lachance; Bernhard O. Palsson (CoRR, 2018)

COBRAme: A computational framework for genome-scale models of metabolism and gene expression. - Colton J. Lloyd; Ali Ebrahim; Laurence Yang 001; Zachary A. King; Edward Catoiu; Edward J. O'Brien; Joanne K. Liu; Bernhard O. Palsson (PLoS Comput. Biol., 2018)

Estimating Cellular Goals from High-Dimensional Biological Data. - Laurence Yang 001; Michael A. Saunders; Jean-Christophe Lachance; Bernhard O. Palsson; José Bento 001 (KDD, 2019)

DynamicME: dynamic simulation and refinement of integrated models of metabolism and protein expression. - Laurence Yang 001; Ali Ebrahim; Colton J. Lloyd; Michael A. Saunders; Bernhard O. Palsson (BMC Syst. Biol., 2019)

Genome-scale model of metabolism and gene expression provides a multi-scale description of acid stress responses in Escherichia coli. - Bin Du; Laurence Yang 001; Colton J. Lloyd; Xin Fang; Bernhard O. Palsson (PLoS Comput. Biol., 2019)

BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data. - Jean-Christophe Lachance; Colton J. Lloyd; Jonathan M. Monk; Laurence Yang 001; Anand Sastry 002; Yara Seif; Bernhard O. Palsson; Sébastien Rodrigue; Adam M. Feist; Zachary A. King; Pierre-Étienne Jacques (PLoS Comput. Biol., 2019)

Visualizing metabolic network dynamics through time-series metabolomic data. - Lea Buchweitz; James T. Yurkovich; Christoph Blessing; Veronika Kohler; Fabian Schwarzkopf; Zachary A. King; Laurence Yang 001; Freyr Jóhannsson; Ólafur E. Sigurjónsson; Ottar Rolfsson; Julian Heinrich; Andreas Dräger (BMC Bioinform., 2020)

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)

Compound Screening with Deep Learning for Neglected Diseases: Leishmaniasis. - Jonathan A. J. Smith; Hao Xu 039; Xinran Li; Laurence Yang 001; Jahir Gutierrez (MLBC, 2021)

A dynamic metabolic map for diabetes. - Jiao Zhao; Hao Xu 039; Laurence Yang 001 (Nat. Comput. Sci., 2021)

Computation of condition-dependent proteome allocation reveals variability in the macro and micro nutrient requirements for growth. - Colton J. Lloyd; Jonathan Monk; Laurence Yang 001; Ali Ebrahim; Bernhard O. Palsson (PLoS Comput. Biol., 2021)

GripNet: Graph information propagation on supergraph for heterogeneous graphs. - Hao Xu 039; Shengqi Sang; Peizhen Bai; Ruike Li; Laurence Yang 001; Haiping Lu (Pattern Recognit., 2023)

StressME: Unified computing framework of Escherichia coli metabolism, gene expression, and stress responses. - Jiao Zhao; Ke Chen; Bernhard O. Palsson; Laurence Yang 001 (PLoS Comput. Biol., 2024)