Spectral concepts in genome informational analysis
Vincenzo Bonnici, Giuditta Franco, Vincenzo Manca
TL;DR
This paper explores spectral methods based on k-mer analysis to study genome structures, introducing mathematical properties and segmentation procedures tested on human and yeast genomes.
Contribution
It introduces spectral concepts and segmentation procedures based on k-mers for genome analysis, with mathematical properties and practical testing on real genomes.
Findings
Spectral segmentations effectively analyze genome structures.
Mathematical properties of k-spectrum aid in informational analysis.
Procedures tested on human chromosomes and yeast genomes.
Abstract
The concept of k-spectrum for genomes is here investigated as a basic tool to analyze genomes. Related spectral notions based on k-mers are introduced with some related mathematical properties which are relevant for informational analysis of genomes. Procedures to generate spectral segmentations of genomes are provided and are tested (under several values of length k for k-mers) on cases of real genomes, such as some human chromosomes and Saccharomyces cerevisiae.
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