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|Título:||A new algorithm for cluster analysis of genomic methylation|
the Helicobacter pylori case
|Autor:||Vale, F. F.|
Vitor, J. M. B.
|Palavras-chave:||Biochemical Research Methods|
Biotechnology & Applied Microbiology
Computer Science, Interdisciplinary Applications
Mathematical & Computational Biology
Statistics & Probability
|Editora:||OXFORD UNIV PRESS|
|Citação:||BIOINFORMATICS. - Vol. 24, n. 3 (FEB 1 2008), p. 383-388|
|Resumo:||Motivation: The genomic methylation analysis is useful to type bacteria that have a high number of expressed type II methyltransferases. Methyltransferases are usually committed to Restriction and Modification (R-M) systems, in which the restriction endonuclease imposes high pressure on the expression of the cognate methyltransferase that hinder R-M system loss. Conventional cluster methods do not reflect this tendency. An algorithm was developed for dendrogram construction reflecting the propensity for conservation of R-M Type II systems. Results: The new algorithm was applied to 52 Helicobacter pylori strains from different geographical regions and compared with conventional clustering methods. The algorithm works by first grouping strains that share a common minimum set of R-M systems and gradually adds strains according to the number of the R-M systems acquired. Dendrograms revealed a cluster of African strains, which suggest that R-M systems are present in H.pylori genome since its human host migrates from Africa.|
|Aparece nas colecções:||FF - Produção Científica 2000-2009|
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