title: The role played by exons in genomic DNA sequence correlations.
abstract: The codon structure inside exons imposes a strong modulation with period-3 for genomic composition correlations. A new formalism for calculating nucleotide correlations along DNA sequences in terms of an irreducible set of six correlation functions is presented. New procedures to extract the corresponding period-3 modulations are also developed. These modulations are seen to be stronger for the irreducible self-correlation C(zz)(k), which accounts only for the binding strength of dinucleotides (z stands for adenine or thymine minus cytosine or guanine concentrations). We investigate and model the relationship between exon distribution and genomic period-3 correlations for the D. melanogaster genome.
authors.affiliation: Instituto de Física, Universidade Federal de Uberlândia, Uberlândia, [corrected] MG, Brazil. jcog@infis.ufu.br
authors.forename: João Carlos de Oliveira
authors.initials: JC
authors.lastname: Guerra
authors.forename: Pedro
authors.initials: P
authors.lastname: Licinio
mesh_terms: D000465:Algorithms; D000818:Animals; D003062:Codon / Q000235:genetics; D004247:DNA / Q000235:genetics*; D004331:Drosophila melanogaster / Q000235:genetics*; D005091:Exons / Q000235:genetics*; D049750:Genome, Insect / Q000235:genetics*; D008957:Models, Genetic
chemical_list: D003062:Codon; D004247:DNA