LTRclassifier: A website for fast structural LTR retrotransposons classification in plants.
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ABSTRACT:
SUBMITTER: Monat C
PROVIDER: S-EPMC5173273 | biostudies-literature | 2016
REPOSITORIES: biostudies-literature
Publications
LTRclassifier: A website for fast structural LTR retrotransposons classification in plants.
Monat Cecile C Tando Ndomassi N Tranchant-Dubreuil Christine C Sabot Francois F
Mobile genetic elements 20160926 6
Automatic classification of LTR retrotransposons is a big challenge in the area of massive genomics. Many tools were developed to detect them but automatic classification is somehow challenging. Here we propose a simple approach, <i>LTRclassifier</i>, based on <i>HMM</i> recognition followed by <i>BLAST</i> analyses (<i>i</i>) to classify plant LTR retrotransposons in their respective superfamily, and (<i>ii</i>) to provide automatically a basic functional annotation of these elements. The metho ...[more]
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