MersV1, Main, Exploration, bibRecord, 002D14

Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands.

Identifieur interne : 002D14 ( Main/Exploration ); précédent : 002D13; suivant : 002D15

Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands.

Auteurs : Georgios S. Vernikos [Royaume-Uni] ; Julian Parkhill

Source :

Bioinformatics (Oxford, England) [ 1367-4811 ] ; 2006.

RBID : pubmed:16837528

Descripteurs français

KwdFr :
- ADN bactérien (génétique), Algorithmes, Facteurs de virulence (génétique), Génome bactérien (génétique), Ilots génomiques (génétique), Salmonella (génétique), Salmonella (pathogénicité), Transfert horizontal de gène (génétique), Virulence (génétique), Évolution biologique.
MESH :
- génétique : ADN bactérien, Facteurs de virulence, Génome bactérien, Ilots génomiques, Salmonella, Transfert horizontal de gène, Virulence.
- pathogénicité : Salmonella.
- Algorithmes, Évolution biologique.

English descriptors

KwdEn :
- Algorithms, Biological Evolution, DNA, Bacterial (genetics), Gene Transfer, Horizontal (genetics), Genome, Bacterial (genetics), Genomic Islands (genetics), Salmonella (genetics), Salmonella (pathogenicity), Virulence (genetics), Virulence Factors (genetics).
MESH :
- chemical , genetics : DNA, Bacterial, Virulence Factors.
- genetics : Gene Transfer, Horizontal, Genome, Bacterial, Genomic Islands, Salmonella, Virulence.
- pathogenicity : Salmonella.
- Algorithms, Biological Evolution.

Abstract

There is a growing literature on the detection of Horizontal Gene Transfer (HGT) events by means of parametric, non-comparative methods. Such approaches rely only on sequence information and utilize different low and high order indices to capture compositional deviation from the genome backbone; the superiority of the latter over the former has been shown elsewhere. However even high order k-mers may be poor estimators of HGT, when insufficient information is available, e.g. in short sliding windows. Most of the current HGT prediction methods require pre-existing annotation, which may restrict their application on newly sequenced genomes.

DOI: 10.1093/bioinformatics/btl369
PubMed: 16837528

Affiliations:

Royaume-Uni

Le document en format XML

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<term>Genomic Islands (genetics)</term>
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<term>Ilots génomiques (génétique)</term>
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<term>Évolution biologique</term>
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<term>Virulence Factors</term>
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<term>Ilots génomiques</term>
<term>Salmonella</term>
<term>Transfert horizontal de gène</term>
<term>Virulence</term>
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<front><div type="abstract" xml:lang="en">There is a growing literature on the detection of Horizontal Gene Transfer (HGT) events by means of parametric, non-comparative methods. Such approaches rely only on sequence information and utilize different low and high order indices to capture compositional deviation from the genome backbone; the superiority of the latter over the former has been shown elsewhere. However even high order k-mers may be poor estimators of HGT, when insufficient information is available, e.g. in short sliding windows. Most of the current HGT prediction methods require pre-existing annotation, which may restrict their application on newly sequenced genomes.</div>
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Serveur d'exploration MERS

Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands.

Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands.

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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