There are many parallels between historical linguistics and molecular phylogenetics. In this
paper we describe an algorithmic pipeline that mimics, as closely as possible, the traditional …

Twelve homology models of the human M 2 muscarinic receptor using different sets of
templates have been designed using the Prime program or the modeller program and …

Background The quality of progressive sequence alignments strongly depends on the
accuracy of the individual pairwise alignment steps since gaps that are introduced at one …

We develop a theory of algebraic operations over linear and context-free grammars that
makes it possible to combine simple “atomic” grammars operating on single sequences into …

Background Genomic DNA frequently undergoes rearrangement of the gene order that can
be localized by comparing the two DNA sequences. In mitochondrial genomes different …

Alignments, ie, position-wise comparisons of two or more strings or ordered lists are of
utmost practical importance in computational biology and a host of other fields, including …

A complex evaluation of agonist bias at G-protein coupled receptors at the level of G-protein
classes and isoforms including non-preferential ones is essential for advanced agonist …

Multiple sequence alignments are an essential tool in bioinformatics and computational
biology, where they are used to represent the mutual evolutionary relationships and …

We develop a theory of algebraic operations over linear grammars that makes it possible to
combine simple “atomic” grammars operating on single sequences into complex, multi …

Multiple sequence alignments are a crucial intermediate step in a plethora of data analysis
workflows in computational biology. While multiple sequence alignments are usually …