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2017 ; 45
(4
): e17
Nephropedia Template TP
gab.com Text
Twit Text FOAVip
Twit Text #
English Wikipedia
TEtools facilitates big data expression analysis of transposable elements and
reveals an antagonism between their activity and that of piRNA genes
#MMPMID28204592
Lerat E
; Fablet M
; Modolo L
; Lopez-Maestre H
; Vieira C
Nucleic Acids Res
2017[Feb]; 45
(4
): e17
PMID28204592
show ga
Over recent decades, substantial efforts have been made to understand the
interactions between host genomes and transposable elements (TEs). The impact of
TEs on the regulation of host genes is well known, with TEs acting as platforms
of regulatory sequences. Nevertheless, due to their repetitive nature it is
considerably hard to integrate TE analysis into genome-wide studies. Here, we
developed a specific tool for the analysis of TE expression: TEtools. This tool
takes into account the TE sequence diversity of the genome, it can be applied to
unannotated or unassembled genomes and is freely available under the GPL3
(https://github.com/l-modolo/TEtools). TEtools performs the mapping of RNA-seq
data obtained from classical mRNAs or small RNAs onto a list of TE sequences and
performs differential expression analyses with statistical relevance. Using this
tool, we analyzed TE expression from five Drosophila wild-type strains. Our data
show for the first time that the activity of TEs is strictly linked to the
activity of the genes implicated in the piwi-interacting RNA biogenesis and
therefore fits an arms race scenario between TE sequences and host control genes.