MersV1, Main, Exploration, bibRecord, 001A60

Tetrahedral Gray Code for Visualization of Genome Information

Identifieur interne : 001A60 ( Main/Exploration ); précédent : 001A59; suivant : 001A61

Tetrahedral Gray Code for Visualization of Genome Information

Auteurs : Natsuhiro Ichinose [Japon] ; Tetsushi Yada [Japon] ; Osamu Gotoh [Japon]

Source :

PLoS ONE [ 1932-6203 ] ; 2014.

RBID : PMC:3903499

Descripteurs français

KwdFr :
- Abeilles (génétique), Animaux, Biologie informatique (), Biologie informatique (instrumentation), Couleur, Génome (génétique), Génomique ().
MESH :
- génétique : Abeilles, Génome.
- instrumentation : Animaux, Biologie informatique, Couleur, Génomique.

English descriptors

KwdEn :
- Animals, Bees (genetics), Color, Computational Biology (instrumentation), Computational Biology (methods), Genome (genetics), Genomics (methods).
MESH :
- genetics : Bees, Genome.
- instrumentation : Computational Biology.
- methods : Computational Biology, Genomics.
- Animals, Color.

Abstract

We propose a tetrahedral Gray code that facilitates visualization of genome information on the surfaces of a tetrahedron, where the relative abundance of each -mer in the genomic sequence is represented by a color of the corresponding cell of a triangular lattice. For biological significance, the code is designed such that the -mers corresponding to any adjacent pair of cells differ from each other by only one nucleotide. We present a simple procedure to draw such a pattern on the development surfaces of a tetrahedron. The thus constructed tetrahedral Gray code can demonstrate evolutionary conservation and variation of the genome information of many organisms at a glance. We also apply the tetrahedral Gray code to the honey bee (Apis mellifera) genome to analyze its methylation structure. The results indicate that the honey bee genome exhibits CpG overrepresentation in spite of its methylation ability and that two conserved motifs, CTCGAG and CGCGCG, in the unmethylated regions are responsible for the overrepresentation of CpG.

Url:

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3903499

DOI: 10.1371/journal.pone.0086133
PubMed: 24475080
PubMed Central: 3903499

Affiliations:

Le document en format XML

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Serveur d'exploration MERS

Tetrahedral Gray Code for Visualization of Genome Information

Tetrahedral Gray Code for Visualization of Genome Information

Source :

Descripteurs français

English descriptors

Abstract

Links toward previous steps (curation, corpus...)

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki

	Serveur d'exploration MERS
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