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Article

Use of 3D chaos game representation to quantify DNA sequence similarity with applications for hierarchical clustering.

Journal of theoretical biology - 7 Jan 2025

Young Stephanie, Gilles Jérôme

Abstract excerpt

A 3D chaos game is shown to be a useful way for encoding DNA sequences. Since matching subsequences in DNA converge in space in 3D chaos game encoding, a DNA sequence's 3D chaos game representation can be used to compare DNA sequences without prior alignment and without truncating or padding any of the sequences. Two proposed methods inspired by shape-similarity comparison techniques show that this form of...

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PMID: 39433242
DOI: 10.1016/j.jtbi.2024.111972

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