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To this end, we estimated the evolutionary rates of >3,000 proteins in four species of the yeast genus Saccharomyces and investigated their relationship with levels of expression and protein dispensability.
As a first approximation, we estimated the evolutionary rate using the full data set, including Albanian as well as reference sequences, with a strict Bayesian MCMC clock [34].
AGP conducted the phylogenetic analysis of repeat sequences and estimated the evolutionary rates for CP sequences.
Finally, we estimated the evolutionary rate and population dynamics of EV71.
We also estimated the evolutionary dates of the segmental duplication events using K sas the proxy for time (Table 3).
We have also estimated the evolutionary age of most of the transitioning genes at each developmental stage-pair using the Transcriptome Age Index (TAI) metric (see Methods).
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To estimate the evolutionary distances between supertaxa, we generalize the maximum-likelihood distance estimator of two sequences to evolutionary distances of profiles.
The biologists used phylogenetics to estimate the evolutionary distance between sets of plants.
Calculation using the ConSurf Server (http://consurf.tau.ac.il/), which estimates the evolutionary conservation of amino acid positions and visualizes information on the structure surface, revealed a conserved surface on YfiR that contributes to the interaction with YfiB (Fig. 3E and 3F).
Phylogenetics, the science of estimating the evolutionary past is based on the comparison of DNA or protein sequences [1].
Relative rate tests among subfamilies were used to estimate the evolutionary rate variation among CYP3 subfamilies in Actinopterygii.
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