A measure of DNA sequence similarity by Fourier transform with applications on hierarchical clustering

DOI10.1016/J.JTBI.2014.05.043MaRDI QIDQ2415679zbMATH OpenOpenAlexWikidataFDO

Authors Yanyan Li

Publication date 23 May 2019

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.jtbi.2014.05.043

zbMATH Keywords

genomephylogenetic treeseven scalingsimilarity distance

Mathematics Subject Classification ID

Problems related to evolution (92D15) Protein sequences, DNA sequences (92D20)

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Cites work

• scientific article; zbMATH DE number 3448387 (Why is no real title available?)
• A Measure of DNA Sequence Dissimilarity Based on Mahalanobis Distance between Frequencies of Words
• A measure of the similarity of sets of sequences not requiring sequence alignment.
• An Overview of Sequence Comparison: Time Warps, String Edits, and Macromolecules
• Large-Scale Multiple Sequence Alignment and Phylogeny Estimation
• Numerical characteristics of word frequencies and their application to dissimilarity measure for sequence comparison
• Prediction of protein coding regions by the 3-base periodicity analysis of a DNA sequence
• Some biological sequence metrics

Cited in

(9)

• A novel clustering method via nucleotide-based Fourier power spectrum analysis
• A novel DNA sequence similarity calculation based on simplified pulse-coupled neural network and Huffman coding
• Periodic power spectrum with applications in detection of latent periodicities in DNA sequences
• A new method to cluster DNA sequences using Fourier power spectrum
• An improved model for whole genome phylogenetic analysis by Fourier transform
• Analysis of similarity of DNA sequences based on dynamic time warping distances
• Statistical measures of DNA sequence dissimilarity under Markov chain models of base composition
• Use of 3D chaos game representation to quantify DNA sequence similarity with applications for hierarchical clustering
• Use of image texture analysis to find DNA sequence similarities

Describes a project that uses

Uses Software

• MEGA

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