Elbaidouri Moaine, Chaparro Cristian, Panaud Olivier
Laboratoire Génome et développement des plantes, Université de Perpignan Via Domitia, Perpignan, Cedex, France.
Methods Mol Biol. 2013;1057:265-74. doi: 10.1007/978-1-62703-568-2_19.
Plant transposable elements are ubiquitous in eukaryotes. Their propensity to densely populate the genomes of many plants and animal species has put them in the focus of both structural and functional genomics. Although a number of bioinformatic software have been recently developed for the annotation of TEs in sequenced genomes, there are very few computational tools strictly dedicated to the identification of active TEs using genome-wide approaches. In this paper, we describe SearchTESV, a pipeline that we have developed to detect Transposable Elements-associated structural variants (TEASVs) using Next Generation Sequencing (NGS) technologies.
植物转座元件在真核生物中普遍存在。它们在许多植物和动物物种基因组中密集存在的倾向使其成为结构基因组学和功能基因组学的研究重点。尽管最近已经开发了许多生物信息学软件用于注释测序基因组中的转座元件，但很少有专门使用全基因组方法来识别活跃转座元件的计算工具。在本文中，我们描述了SearchTESV，这是我们开发的一种流程，用于使用下一代测序（NGS）技术检测转座元件相关的结构变异（TEASV）。
