DNA sequence representation without degeneracy.
Graphical representation of DNA sequence provides a simple way of viewing, sorting and comparing various gene structures. A new two-dimensional graphical representation method using a two- quadrant Cartesian coordinates system has been derived for mathematical denotation of DNA sequence. The two-dimensional graphic representation resolves sequences' degeneracy and is mathematically proven to eliminate circuit formation. Given x-projection and y-projection of any point on the graphical representation, the number of A, G, C and T from the beginning of the sequence to that point could be found. Compared with previous methods, this graphical representation is more in-line with the conventional recognition of linear sequences by molecular biologists, and also provides a metaphor in two dimensions for local and global DNA sequence comparison.
Yau
Stephen S-T
SS
Department of Mathematics, Statistics and Computer Science, University of Illinois at Chicago, 851 South Morgan Street, Chicago, IL 60607-7045, USA. yau@uic.edu
Wang
Jiasong
J
Niknejad
Amir
A
Lu
Chaoxiao
C
Jin
Ning
N
Ho
Yee-Kin
YK
D000818:Animals; D001483:Base Sequence; D006801:Humans; D051379:Mice; D008962:Models, Theoretical; D017422:Sequence Analysis, DNA / Q000379:methods*