Abstract
Bacterial genomes can be modelled as permutations of conserved regions. These regions are sequences of nucleotides that are identified for a set of bacterial genomes through sequence alignment, and are presumed to be preserved through the underlying process, whether through chance or selection. Once a correspondence is established between genomes and permutations, the problem of determining the evolutionary distance between genomes (in order to construct phylogenetic trees) can be tackled by use of group-theoretical tools. Here we review some of the resulting problems in computational group theory and describe BioGAP, a computer algebra package for genome rearrangement calculations, implemented in GAP.
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Egri-Nagy, A., Francis, A.R., Gebhardt, V. (2014). Bacterial Genomics and Computational Group Theory: The BioGAP Package for GAP . In: Hong, H., Yap, C. (eds) Mathematical Software – ICMS 2014. ICMS 2014. Lecture Notes in Computer Science, vol 8592. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-662-44199-2_12
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DOI: https://doi.org/10.1007/978-3-662-44199-2_12
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