Recent advances in transcriptomics have uncovered lots of novel transcripts in plants. To annotate such transcripts, dissecting their coding potential is a critical step. Computational approaches have been proven fruitful in this task; however, most current tools are designed/optimized for mammals and only a few of them have been tested on a limited number of plant species. In this work, we present NAMS webserver, which contains a novel coding potential classifier, NAMS, specifically optimized for plants. We have evaluated the performance of NAMS using a comprehensive dataset containing more than 3 million transcripts from various plant species, where NAMS demonstrates high accuracy and remarkable performance improvements over state-of-the-art software. Moreover, our webserver also furnishes functional annotations, aiming to provide users informative clues to the functions of their transcripts. Considering that most plant species are poorly characterized, our NAMS webserver could serve as a valuable resource to facilitate the transcriptomic studies. The webserver with testing dataset is freely available at http://sunlab.cpy.cuhk.edu.hk/NAMS/.

中文翻译：

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NAMS 网络服务器：植物转录本的编码潜力评估和功能注释

转录组学的最新进展已经在植物中发现了许多新的转录本。为了注释这些转录本，剖析它们的编码潜力是关键的一步。在这项任务中，计算方法已被证明是卓有成效的。然而，目前大多数工具都是为哺乳动物设计/优化的，只有少数工具在有限数量的植物物种上进行了测试。在这项工作中，我们提出了 NAMS 网络服务器，它包含一个新的编码潜力分类器，NAMS，专门针对植物进行了优化。我们使用包含来自各种植物物种的超过 300 万个转录本的综合数据集评估了 NAMS 的性能，其中 NAMS 展示了与最先进软件相比的高精度和显着的性能改进。此外，我们的网络服务器还提供功能注释，旨在为用户提供有关其成绩单功能的信息线索。考虑到大多数植物物种的特征很差，我们的 NAMS 网络服务器可以作为促进转录组学研究的宝贵资源。带有测试数据集的网络服务器可在 http://sunlab.cpy.cuhk.edu.hk/NAMS/ 免费获得。