Information and Computational Sciences, The James Hutton Institute, Invergowrie, Dundee, DD2 5DA, UK.
Biomathematics and Statistics Scotland, University of Aberdeen, Aberdeen, AB25 2ZD, UK.
Sci Data. 2021 Mar 25;8(1):90. doi: 10.1038/s41597-021-00872-4.
A high-quality, barley gene reference transcript dataset (BaRTv1.0), was used to quantify gene and transcript abundances from 22 RNA-seq experiments, covering 843 separate samples. Using the abundance data we developed a Barley Expression Database (EORNA*) to underpin a visualisation tool that displays comparative gene and transcript abundance data on demand as transcripts per million (TPM) across all samples and all the genes. EORNA provides gene and transcript models for all of the transcripts contained in BaRTV1.0, and these can be conveniently identified through either BaRT or HORVU gene names, or by direct BLAST of query sequences. Browsing the quantification data reveals cultivar, tissue and condition specific gene expression and shows changes in the proportions of individual transcripts that have arisen via alternative splicing. TPM values can be easily extracted to allow users to determine the statistical significance of observed transcript abundance variation among samples or perform meta analyses on multiple RNA-seq experiments. * Eòrna is the Scottish Gaelic word for Barley.
使用高质量的大麦基因参考转录数据集（BaRTv1.0），对 22 个 RNA-seq 实验的基因和转录本丰度进行定量分析，涵盖 843 个独立样本。利用这些丰度数据，我们开发了一个大麦表达数据库（EORNA*），为可视化工具提供支持，根据需要以每百万转录本（TPM）的形式显示所有样本和所有基因的比较基因和转录本丰度数据。EORNA 为 BaRTV1.0 中包含的所有转录本提供了基因和转录本模型，这些模型可以通过 BaRT 或 HORVU 基因名称方便地识别，也可以通过直接对查询序列进行 BLAST 识别。浏览定量数据可以揭示特定于品种、组织和条件的基因表达，并显示通过选择性剪接产生的个体转录本比例的变化。TPM 值可以轻松提取，允许用户确定样本之间观察到的转录本丰度变化的统计显著性，或对多个 RNA-seq 实验进行元分析。* Eòrna 是盖尔语中大麦的单词。
