title: Characterization of DNA primary sequences based on the average distances between bases.
abstract: We outline numerical characterization of DNA primary sequence based on calculation of the average distance between pairs of nucleic acid bases. This leads to a representation of DNA by a condensed 4 x 4 symmetrical matrix, the elements of which give the average separation between pair of bases X, Y in DNA (X, Y = A, C, G, T). As an invariant of choice we consider the leading eigenvalue of the derived 4 x 4 matrix. Additional structurally related invariants were obtained by constructing additional "higher order" 4 x 4 matrices derived from the initial 4 x 4 matrix by raising its elements to higher powers. Suitably normalized leading eigenvalue of these matrices offer a novel characterization of DNA primary sequences, referred to as "DNA profiles". The approach is illustrated on exon 1 of human beta-globin gene.
authors: Department of Mathematics & Computer Science, Drake University, Des Moines, Iowa 50311, USA.
authors: M
authors: M
authors: Randić
authors: S C
authors: SC
authors: Basak
mesh_terms: D004247:DNA / Q000737:chemistry*; D008958:Models, Molecular; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D004247:DNA