SigHunt: horizontal gene transfer finder optimized for eukaryotic genomes.
Identifieur interne : 001A83 ( Main/Exploration ); précédent : 001A82; suivant : 001A84SigHunt: horizontal gene transfer finder optimized for eukaryotic genomes.
Auteurs : Kamil S. Jaron [République tchèque] ; Ji C. Moravec [République tchèque] ; Natália Martínková [République tchèque]Source :
- Bioinformatics (Oxford, England) [ 1367-4811 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- genetics : Eukaryota.
- methods : Genomics, Sequence Analysis, DNA.
- Base Composition, Computational Biology, Gene Transfer, Horizontal, Genomic Islands, Phylogeny.
Abstract
Genomic islands (GIs) are DNA fragments incorporated into a genome through horizontal gene transfer (also called lateral gene transfer), often with functions novel for a given organism. While methods for their detection are well researched in prokaryotes, the complexity of eukaryotic genomes makes direct utilization of these methods unreliable, and so labour-intensive phylogenetic searches are used instead.
DOI: 10.1093/bioinformatics/btt727
PubMed: 24371153
Affiliations:
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Moravec</name><affiliation wicri:level="3"><nlm:affiliation>Institute of Biostatistics and Analyses, Masaryk University and Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno, Czech Republic.</nlm:affiliation><country xml:lang="fr">République tchèque</country><wicri:regionArea>Institute of Biostatistics and Analyses, Masaryk University and Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno</wicri:regionArea><placeName><settlement type="city">Brno</settlement><region>Moravie</region></placeName></affiliation></author><author><name sortKey="Martinkova, Natalia" sort="Martinkova, Natalia" uniqKey="Martinkova N" first="Natália" last="Martínková">Natália Martínková</name><affiliation wicri:level="3"><nlm:affiliation>Institute of Biostatistics and Analyses, Masaryk University and Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno, Czech Republic Institute of Biostatistics and Analyses, Masaryk University and Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno, Czech Republic.</nlm:affiliation><country xml:lang="fr">République tchèque</country><wicri:regionArea>Institute of Biostatistics and Analyses, Masaryk University and Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno, Czech Republic Institute of Biostatistics and Analyses, Masaryk University and Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno</wicri:regionArea><placeName><settlement type="city">Brno</settlement><region>Moravie</region></placeName></affiliation></author></analytic><series><title level="j">Bioinformatics (Oxford, England)</title><idno type="eISSN">1367-4811</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Composition</term><term>Computational Biology</term><term>Eukaryota (genetics)</term><term>Gene Transfer, Horizontal</term><term>Genomic Islands</term><term>Genomics (methods)</term><term>Phylogeny</term><term>Sequence Analysis, DNA (methods)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de séquence d'ADN ()</term><term>Biologie informatique</term><term>Composition en bases nucléiques</term><term>Eucaryotes (génétique)</term><term>Génomique ()</term><term>Ilots génomiques</term><term>Phylogénie</term><term>Transfert horizontal de gène</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Eukaryota</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Eucaryotes</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Genomics</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Composition</term><term>Computational Biology</term><term>Gene Transfer, Horizontal</term><term>Genomic Islands</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Biologie informatique</term><term>Composition en bases nucléiques</term><term>Génomique</term><term>Ilots génomiques</term><term>Phylogénie</term><term>Transfert horizontal de gène</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Genomic islands (GIs) are DNA fragments incorporated into a genome through horizontal gene transfer (also called lateral gene transfer), often with functions novel for a given organism. While methods for their detection are well researched in prokaryotes, the complexity of eukaryotic genomes makes direct utilization of these methods unreliable, and so labour-intensive phylogenetic searches are used instead.</div></front></TEI><affiliations><list><country><li>République tchèque</li></country><region><li>Moravie</li></region><settlement><li>Brno</li></settlement></list><tree><country name="République tchèque"><region name="Moravie"><name sortKey="Jaron, Kamil S" sort="Jaron, Kamil S" uniqKey="Jaron K" first="Kamil S" last="Jaron">Kamil S. Jaron</name></region><name sortKey="Martinkova, Natalia" sort="Martinkova, Natalia" uniqKey="Martinkova N" first="Natália" last="Martínková">Natália Martínková</name><name sortKey="Moravec, Ji C" sort="Moravec, Ji C" uniqKey="Moravec J" first="Ji C" last="Moravec">Ji C. Moravec</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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