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Evolution of course also takes place at higher levels of organization than substitutions within protein-coding genes. In particular, large genomic segments containing one or more genes can be duplicated or deleted, and segments can be 'horizontally transfered', i.e. taken from one organism's geno...
Extracting motifs from sequences is a mainstay of bioinformatics. We look at the problem of mining structured motifs, which allow variable length gaps between simple motif components. We propose an efficient algorithm, called EXMOTIF, that given some seq
Ordinary differential equations (ODEs) are an important tool for describing the dynamics of biological systems. However, for ODE models to be useful, their parameters must first be calibrated. Parameter estimation, that is, finding parameter values given
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Bayesian phylogeny of eukaryotes based on the analysis of 125 complete or nearly complete SSU rRNA gene sequences (1,175 positions), including 56 selected environmental phylotypes (indicated in bold). The number of phylotypes belonging to each higher-level eukaryotic group is indicated in brackets ...