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Titlebook: Metabolic Network Reconstruction and Modeling; Methods and Protocol Marco Fondi Book 2018 Springer Science+Business Media, LLC 2018 metabol

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Reconstruction and Analysis of Central Metabolism in Microbes,d the inference of periphery metabolic pathways based on lower-confidence annotations. The central carbon pathways and electron transport chains are among the most well-understood regions of microbial metabolism, and these pathways contribute significantly toward defining cellular behavior and growt
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Using PSAMM for the Curation and Analysis of Genome-Scale Metabolic Models,otation and consistency checking of metabolic models with the simulation of metabolic fluxes. The model representation in PSAMM is compatible with version tracking systems like Git, which allows for full documentation of model file changes and enables collaborative curations of large, complex models
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Integration of Comparative Genomics with Genome-Scale Metabolic Modeling to Investigate Strain-Specictions using a number of constraint-based methods. This approach has been applied in recent years to gain deep insights into the cellular phenotype role of the genes at a systems-level, driving the design of targeted experiments and paving the way for knowledge-based synthetic biology..The identifi
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Template-Assisted Metabolic Reconstruction and Assembly of Hybrid Bacterial Models,e laboratory for basic research or genetic/metabolic engineering purposes. In silico metabolic reconstruction and simulation of the metabolism of the hybrid strains that result from these processes can be used to predict the phenotypic outcome of such genomic rearrangements; this can be especially h
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Differential Proteomics Based on 2D-Difference In-Gel Electrophoresis and Tandem Mass Spectrometry to determine quantitatively and comparatively protein abundances in cell extracts from different biological sources/conditions according to a gel-based approach. In particular, 2D-DIGE is used for protein specie separation, detection, and relative quantification, whenever tandem MS is used to obtain
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