Titlebook: Computational Methods in Protein Evolution; Tobias Sikosek Book 2019 Springer Science+Business Media, LLC, part of Springer Nature 2019 ph

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2.2.1.2.3 Continental heat flow literature, to predict the change in the Gibbs free energy for protein folding and protein-protein interactions. It can be used both through a web server and as a stand-alone application. Since ELASPIC was trained using homology models and not crystal structures, it can be applied to a much broader range of pr

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2.3.2.5 Presentation of results,studies to examining a relatively small number of specific hypotheses. For this reason, we have little detailed, unbiased information about how molecular function evolves across large protein family phylogenies. Here we describe a generalized protocol that integrates ancestral sequence reconstructio

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2.2.1.2.6-7 References for 2.2.1.2,sites approximation that can be readily incorporated in maximum likelihood methods of phylogenetic inference, including ancestral sequence reconstruction. Next, we describe its validation with simulated and real proteins and its limitations and advantages with respect to empirical models that lack s