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Title: Comparing reverse complementary genomic words based on their distance distributions and frequencies
Author: Tavares, Ana Helena
Raymaekers, Jakob
Rousseeuw, Peter J
Silva, Raquel M
Bastos, Carlos A C
Pinho, Armando
Brito, Paula
Afreixo, Vera
Keywords: DNA, Complementary
Genome, Human
Molecular Sequence Annotation
Issue Date: Mar-2018
Publisher: Springer Verlag
Abstract: In this work, we study reverse complementary genomic word pairs in the human DNA, by comparing both the distance distribution and the frequency of a word to those of its reverse complement. Several measures of dissimilarity between distance distributions are considered, and it is found that the peak dissimilarity works best in this setting. We report the existence of reverse complementary word pairs with very dissimilar distance distributions, as well as word pairs with very similar distance distributions even when both distributions are irregular and contain strong peaks. The association between distribution dissimilarity and frequency discrepancy is also explored, and it is speculated that symmetric pairs combining low and high values of each measure may uncover features of interest. Taken together, our results suggest that some asymmetries in the human genome go far beyond Chargaff's rules. This study uses both the complete human genome and its repeat-masked version.
Peer review: yes
DOI: 10.1007/s12539-017-0273-0
ISSN: 1913-2751
Appears in Collections:CIDMA - Artigos
DETI - Artigos
IBIMED - Artigos
DMat - Artigos
IEETA - Artigos
PSG - Artigos

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