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EORNA, a barley gene and transcript abundance database
Scientific Data ( IF 9.8 ) Pub Date : 2021-03-25 , DOI: 10.1038/s41597-021-00872-4
Linda Milne 1 , Micha Bayer 1 , Paulo Rapazote-Flores 1 , Claus-Dieter Mayer 2 , Robbie Waugh 3, 4, 5 , Craig G Simpson 3
Affiliation  

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.



中文翻译:

EORNA,大麦基因和转录丰度数据库

高质量的大麦基因参考转录本数据集 (BaRTv1.0) 用于量化来自 22 个 RNA-seq 实验的基因和转录本丰度,涵盖 843 个独立样本。使用丰度数据,我们开发了一个大麦表达数据库 (EORNA*) 来支持可视化工具,该工具以所有样本和所有基因的每百万转录本 (TPM) 的形式按需显示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基因和转录本模型,这些可以通过 BaRT 或 HORVU 基因名称或通过查询序列的直接 BLAST 方便地识别。浏览量化数据可以揭示品种、组织和条件特定的基因表达,并显示通过选择性剪接产生的个体转录本比例的变化。可以轻松提取 TPM 值,以允许用户确定观察到的样本间转录本丰度变化的统计显着性,或对多个 RNA-seq 实验进行元分析。* Eòrna 是苏格兰盖尔语中大麦的意思。

更新日期:2021-03-25
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