pyTFA and matTFA: a Python package and a Matlab toolbox for Thermodynamics-based Flux Analysis
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We consider an elastic chain at thermodynamic equilibrium with a heat bath, and derive an approximation to the probability density function, or pdf, governing the relative location and orientation of the two ends of the chain. Our motivation is to exploit ...
Thermodynamic analysis of metabolic networks has recently generated increasing interest for its ability to add constraints on metabolic network operation, and to combine metabolic fluxes and metabolite measurements in a mechanistic manner. Concepts for the ...
Two biomass gasification concepts, i.e. indirectly heated, steam blown fluidised bed gasification and directly heated, air blown fixed bed gasification are modelled with adjusted equilibrium equations, their energy requirements are integrated and an exergy ...
ABSTRACT A new form of metabolic flux analysis (MFA) called thermodynamics-based metabolic flux analysis (TMFA) is introduced with the capability of generating thermodynamically feasible flux and metabolite activity profiles on a genome scale. TMFA involve ...
We present experimental evidence for a strong analogy between quasi‐2D uniform non‐equilibrium steady states (NESS) of excited granular materials and equilibrium thermodynamics. Under isochoric conditions we find that the structure of granular NESS, as mea ...
In view of the prime importance of the biomass yield in microbial growth for research, for environmental and for industrial applications some thermodynamic concepts are reviewed that were developed over the years in order to understand the large variations ...
Genome-scale metabolic models are an invaluable tool for analyzing metabolic systems as they provide a more complete picture of the processes of metab. The authors have constructed a genome-scale metabolic model of Escherichia coli based on the iJR904 mode ...
High-impact research articles on microfluidics and its application in biology and biotechnology. The articles have been selected from our popular Electrophoresis journal special issue. ...
With the sequencing and annotation of the entire genomes of numerous microorganisms has come the advent of the genome scale metabolic models such as the iJR904 model of E. coli from Palsson and coworkers. Metabolic flux anal. (MFA) is widely employed to ge ...
We derive an analytical expression for the size distribution of monoatomic wires in the framework of a one-dimensional lattice gas model at thermodynamic equilibrium. The theoretical results are compared with the size distribution of one-dimensional Ag wir ...