Nucleotide, dinucleotide and trinucleotide frequencies explain patterns observed in chaos game representations of DNA sequences (original) (raw)

Journal Article

Nick Goldman

Laboratory of Mathematical Biology, National Institute for Medical Research

The Ridgeway, Mill Hill, London NW7 1AA, UK

* To whom correspondence should be addressed

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Received:

07 December 1992

Revision received:

25 March 1993

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Nick Goldman, Nucleotide, dinucleotide and trinucleotide frequencies explain patterns observed in chaos game representations of DNA sequences, Nucleic Acids Research, Volume 21, Issue 10, 25 May 1993, Pages 2487–2491, https://doi.org/10.1093/nar/21.10.2487
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Abstract

The chaos game representation (CGR) is a scatter plot derived from a DNA sequence, with each point of the plot corresponding to one base of the sequence. If the DNA sequence were a random collection of bases, the CGR would be a uniformly filled square; conversely, any patterns visible In the CGR represent some pattern (Information) In the DNA sequence. In this paper, patterns previously observed in a variety of DNA sequences are explained solely In terms of nucleotide, dinucleotide and trinucleotide frequencies.

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