93 citations · 140 across the 5 of their papers we have counts for
5 papers
Data-driven and Physics Informed Modelling of Chinese Hamster Ovary Cell Bioreactors
Tianqi Cui, Tom S. Bertalan, Nelson Ndahiro +4
Fed-batch culture is an established operation mode for the production of biologics using mammalian cell cultures. Quantitative modeling integrates both kinetics for some key reacti…
Accelerating flux balance calculations in genome-scale metabolic models by localizing the application of loopless constraints
Siu Hung Joshua Chan, Lin Wang, Satyakam Dash +1
Background: Genome-scale metabolic network models and constraint-based modeling techniques have become important tools for analyzing cellular metabolism. Thermodynamically infeasib…
Creation and analysis of biochemical constraint-based models: the COBRA Toolbox v3.0
Laurent Heirendt, Sylvain Arreckx, Thomas Pfau +52
COnstraint-Based Reconstruction and Analysis (COBRA) provides a molecular mechanistic framework for integrative analysis of experimental data and quantitative prediction of physico…
Large-scale inference and graph theoretical analysis of gene-regulatory networks in B. stubtilis
C. Christensen, A. Gupta, C. D. Maranas +1
We present the methods and results of a two-stage modeling process that generates candidate gene-regulatory networks of the bacterium B. subtilis from experimentally obtained, yet…
Elucidation of Directionality for Co-Expressed Genes: Predicting Intra-Operon Termination Sites
Anshuman Gupta, Costas D. Maranas, Reka Albert
We present a novel framework for inferring regulatory and sequence-level information from gene co-expression networks. The key idea of our methodology is the systematic integration…