Abstract
We developed a methodology to process DNA sequences based on the inter-dinucleotide distances and we characterized the inter-dinucleotide distance distributions of the human genome. The distance distribution of each dinucleotide was compared to the distance distribution of all the other dinucleotides using the Kullback-Leibler divergence. We found out that the divergence between the distribution of the distances of a dinucleotide and that of its reversed complement is very small, indicating that these distance distributions are very similar. This is an interesting finding that might give evidence of a stronger parity rule than the one provided by Chargaff’s second parity rule. Furthermore, we also compared the distance distribution of each dinucleotide to a reference distribution, that of a random sequence generated with the same dinucleotide abundances, revealing the CG dinucleotide as the one with the highest cumulative relative error for the first 60 distances.
Keywords
- Distance Distribution
- Reference Distribution
- Parity Rule
- Reversed Complement
- Relative Frequency Distribution
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Bastos, C.A.C., Afreixo, V., Pinho, A.J., Garcia, S.P., Rodrigues, J.M.O.S., Ferreira, P.J.S.G. (2011). Distances between Dinucleotides in the Human Genome. In: Rocha, M.P., Rodríguez, J.M.C., Fdez-Riverola, F., Valencia, A. (eds) 5th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2011). Advances in Intelligent and Soft Computing, vol 93. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-19914-1_28
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DOI: https://doi.org/10.1007/978-3-642-19914-1_28
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-19913-4
Online ISBN: 978-3-642-19914-1
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