Identification of novel transcripts in annotated genomes using RNA-Seq
Identification of novel transcripts in annotated genomes using RNA-Seq
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DOI：
10.1093/bioinformatics/btr355
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发表时间：
2011-09-01
期刊：
影响因子：
5.8
通讯作者：
Pachter, Lior
中科院分区：
文献类型：
--
作者：
Roberts, Adam;Pimentel, Harold;Pachter, Lior
我们针对RNA - Seq数据描述了一个新的“基于参考注释的转录本组装”问题，该问题涉及在现有注释的背景下组装新的转录本。在对模式生物的表达进行分析时会出现这个问题，在这种情况下，利用现有注释来发现新的转录本是可取的。我们提出了一种基于参考注释的转录本组装算法，并展示了如何利用它来快速研究与参考注释相比RNA - Seq所揭示的新转录本。
We describe a new 'reference annotation based transcript assembly' problem for RNA-Seq data that involves assembling novel transcripts in the context of an existing annotation. This problem arises in the analysis of expression in model organisms, where it is desirable to leverage existing annotations for discovering novel transcripts. We present an algorithm for reference annotation based transcript assembly and show how it can be used to rapidly investigate novel transcripts revealed by RNA-Seq in comparison with a reference annotation.