St Laurent Georges, Wahlestedt Claes, Kapranov Philipp
St. Laurent Institute, 317 New Boston St., Suite 201, Woburn, MA 01801 USA; Department of Molecular Biology, Cell Biology and Biochemistry, Brown University, 185 Meeting Street, Providence, RI 02912, USA.
Center for Therapeutic Innovation and Department of Psychiatry and Behavioral Sciences, University of Miami Miller School of Medicine, 1501 NW 10th Ave, Miami, FL 33136 USA.
Trends Genet. 2015 May;31(5):239-51. doi: 10.1016/j.tig.2015.03.007. Epub 2015 Apr 10.
Advances in the depth and quality of transcriptome sequencing have revealed many new classes of long noncoding RNAs (lncRNAs). lncRNA classification has mushroomed to accommodate these new findings, even though the real dimensions and complexity of the noncoding transcriptome remain unknown. Although evidence of functionality of specific lncRNAs continues to accumulate, conflicting, confusing, and overlapping terminology has fostered ambiguity and lack of clarity in the field in general. The lack of fundamental conceptual unambiguous classification framework results in a number of challenges in the annotation and interpretation of noncoding transcriptome data. It also might undermine integration of the new genomic methods and datasets in an effort to unravel the function of lncRNA. Here, we review existing lncRNA classifications, nomenclature, and terminology. Then, we describe the conceptual guidelines that have emerged for their classification and functional annotation based on expanding and more comprehensive use of large systems biology-based datasets.
转录组测序在深度和质量方面的进展揭示了许多新的长链非编码RNA（lncRNA）类别。尽管非编码转录组的实际规模和复杂性仍然未知，但lncRNA分类已迅速增加以适应这些新发现。虽然特定lncRNA功能的证据不断积累，但相互冲突、令人困惑和重叠的术语导致了该领域总体上的模糊性和不清晰性。缺乏基本的概念明确的分类框架给非编码转录组数据的注释和解释带来了诸多挑战。这也可能会破坏新基因组方法和数据集为揭示lncRNA功能而进行的整合。在此，我们回顾了现有的lncRNA分类、命名法和术语。然后，我们描述了基于对基于大型系统生物学的数据集进行扩展和更全面的使用而出现的lncRNA分类和功能注释的概念指南。
