Spectral distortion measures for biological sequence comparisons and database searching

DOI10.1016/J.PATCOG.2006.02.026MaRDI QIDQ854221zbMATH OpenOpenAlexFDO

Authors Tuan D. Pham

Publication date 7 December 2006

Published in Pattern Recognition (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.patcog.2006.02.026

zbMATH Keywords

DNA sequencesbioinformaticsprotein sequencesdistortion measures

Mathematics Subject Classification ID

Pattern recognition, speech recognition (68T10) Database theory (68P15)

Recommendations

• General methods of sequence comparison
• Distance measures for biological sequences: some recent approaches
• Sequence comparison. Theory and methods
• scientific article; zbMATH DE number 1301593
• scientific article; zbMATH DE number 434563

Cites work

• scientific article; zbMATH DE number 3126094 (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.
• Biological Sequence Analysis
• Hidden Markov Models for Speech Recognition
• Statistical measures of DNA sequence dissimilarity under Markov chain models of base composition
• Statistical methods in bioinformatics: an introduction
• The wavelet transform, time-frequency localization and signal analysis
• Wavelet theory and its application to pattern recognition

Cited in

(9)

• New method for comparing DNA primary sequences based on a discrimination measure
• Approximate symbolic pattern matching for protein sequence data
• Macromolecular sequence analysis using multiwindow Gabor representations
• Numerical characteristics of word frequencies and their application to dissimilarity measure for sequence comparison
• scientific article; zbMATH DE number 2164374 (Why is no real title available?)
• The reconstruction of an Hermitian Toeplitz matrix with prescribed eigenpairs
• The Burrows-Wheeler similarity distribution between biological sequences based on Burrows-Wheeler transform
• Weighted measures based on maximizing deviation for alignment-free sequence comparison
• scientific article; zbMATH DE number 5172014 (Why is no real title available?)

Describes a project that uses

Uses Software

• CLUSTAL
• ClustalW
• PHYLIP

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