title: Methods and software in NGS for TE analysis.
abstract: The recent development of next-generation sequencing (NGS) technologies allowed various authors to imagine, test, and validate new approaches for TE analysis, in their nature, type, activity, or quantity. In this chapter, we describe briefly the technologies used, then the various approaches and methods used already, and finally some potential new methods. In contrast to the more molecular chapters of the book, the approaches described here are purely bioinformatics, and have a set of NGS data as a starting point. Moreover, as these analyses are quite recent in the field, most of them were only performed once, and we cannot be sure that they could be reused in other species or context than the original one. However, there are a lot of interesting approaches and results that NGS can provide in the TE field.
authors.affiliation: UMR LGDP, CNRS/UPVD, Université de Perpignan Via Domitia, Perpignan Cedex, France.
authors.forename: Cristian
authors.initials: C
authors.lastname: Chaparro
authors.forename: Francois
authors.initials: F
authors.lastname: Sabot
mesh_terms: D000818:Animals; D002874:Chromosome Mapping / Q000379:methods; D004251:DNA Transposable Elements / Q000235:genetics*; D018628:Gene Dosage; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D058977:Molecular Sequence Annotation / Q000379:methods; D034741:RNA, Small Interfering / Q000235:genetics; D012984:Software; D059467:Transcriptome
chemical_list: D004251:DNA Transposable Elements; D034741:RNA, Small Interfering