Roadmap for annotating transposable elements in eukaryote genomes.
Roadmap for annotating transposable elements in eukaryote genomes.
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DOI：
10.1007/978-1-61779-603-6_3
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发表时间：
2012-01-01
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影响因子：
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通讯作者：
Quesneville, Hadi
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文献类型：
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作者：
Permal, Emmanuelle;Flutre, Timothee;Quesneville, Hadi
目前的高通量技术已经使得甚至对非模式生物的基因组进行测序成为可能。然而，注释过程现在是基因组分析的瓶颈，特别是在处理转座因子（TE）时。采用重新分类和基于知识的方法来检测TE的综合方法可能会产生相当全面和敏感的结果。本章为参与基因组计划的研究人员提供了解决这一问题的路线图。在TE注释过程的每个步骤中，从TE系列的识别到TE副本的注释，我们概述了要使用的工具和良好实践。
Current high-throughput techniques have made it feasible to sequence even the genomes of non-model organisms. However, the annotation process now represents a bottleneck to genome analysis, especially when dealing with transposable elements (TE). Combined approaches, using both de novo and knowledge-based methods to detect TEs, are likely to produce reasonably comprehensive and sensitive results. This chapter provides a roadmap for researchers involved in genome projects to address this issue. At each step of the TE annotation process, from the identification of TE families to the annotation of TE copies, we outline the tools and good practices to be used.