Szcześniak Michał Wojciech, Bryzghalov Oleksii, Ciomborowska-Basheer Joanna, Makałowska Izabela
Laboratory of Integrative Genomics, Institute of Anthropology, Adam Mickiewicz University, Poznan, Poland.
Methods Mol Biol. 2019;1933:415-429. doi: 10.1007/978-1-4939-9045-0_26.
Long non-coding RNAs (lncRNAs) are a class of potent regulators of gene expression that are found in a wide array of eukaryotes; however, our knowledge about these molecules in plants is very limited. In particular, a number of plant species with important roles in biotechnology, agriculture and basic research still lack comprehensively identified and annotated sets of lncRNAs. To address these shortcomings, we previously created a database of lncRNAs in 10 model species, called CANTATAdb, and now we are expanding this online resource to encompass 39 species, including three algae. The lncRNAs were identified computationally using publicly available RNA sequencing (RNA-Seq) data. Expression values, coding potential calculations and other types of information were used to provide annotations for the identified lncRNAs. The data are freely available for searching, browsing and downloading from an online database called CANTATAdb 2.0 ( http://cantata.amu.edu.pl , http://yeti.amu.edu.pl/CANTATA/ ).
长链非编码RNA（lncRNA）是一类在多种真核生物中发现的强大基因表达调节因子；然而，我们对植物中这些分子的了解非常有限。特别是，一些在生物技术、农业和基础研究中具有重要作用的植物物种仍然缺乏全面鉴定和注释的lncRNA集。为了弥补这些不足，我们之前创建了一个包含10个模式物种lncRNA的数据库，称为CANTATAdb，现在我们正在扩展这个在线资源，以涵盖39个物种，包括三种藻类。使用公开可用的RNA测序（RNA-Seq）数据通过计算鉴定lncRNA。表达值、编码潜力计算和其他类型的信息用于为鉴定出的lncRNA提供注释。这些数据可从名为CANTATAdb 2.0的在线数据库（http://cantata.amu.edu.pl ，http://yeti.amu.edu.pl/CANTATA/ ）免费搜索、浏览和下载。
