Abstract
Transposable elements, or transposons, are DNA segments that are repeated within the same genome and are an important component of the genomes of most species. It is generally believed that they play an important role in evolution and genome restructuring. In this work we built a network based on a score which represents the transposon identity. This score is calculated by comparing all currently known D. melanogaster transposons to each other using a Neddleman-Wunsch alignment algorithm. We then use this score to build networks with transposons having a minimal value of identity. We start with networks of transposons with total identity (all have score one) to networks where they may have any identity score (all have non-negative score). The number of successful comparisons as a function of the minimal score shows an abrupt transition for minimal scores at 0.25 which can be associated to general properties of repetitions usually found in genomes. We also show that this score leads to a transition in the topology of transposon networks from scale-free to almost fully-connected.
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© 2008 Springer-Verlag Berlin Heidelberg
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Castro-e-Silva, A., Weber, G., Machado, R.F., Wanner, E.F., Guerra-Sá, R. (2008). Identity Transposon Networks in D. melanogaster . In: Bazzan, A.L.C., Craven, M., Martins, N.F. (eds) Advances in Bioinformatics and Computational Biology. BSB 2008. Lecture Notes in Computer Science(), vol 5167. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-85557-6_15
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DOI: https://doi.org/10.1007/978-3-540-85557-6_15
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-85556-9
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