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环状 Atlas:来自 1070 种脊椎动物转录组的 100 万个高度精确的环状 RNA 的综合资源。

CircAtlas: an integrated resource of one million highly accurate circular RNAs from 1070 vertebrate transcriptomes.

机构信息

Computational Genomics Lab, Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing, 100101, China.

University of Chinese Academy of Sciences, Beijing, 100049, China.

出版信息

Genome Biol. 2020 Apr 28;21(1):101. doi: 10.1186/s13059-020-02018-y.

Abstract

Existing circular RNA (circRNA) databases have become essential for transcriptomics. However, most are unsuitable for mining in-depth information for candidate circRNA prioritization. To address this, we integrate circular transcript collections to develop the circAtlas database based on 1070 RNA-seq samples collected from 19 normal tissues across six vertebrate species. This database contains 1,007,087 highly reliable circRNAs, of which over 81.3% have been assembled into full-length sequences. We profile their expression pattern, conservation, and functional annotation. We describe a novel multiple conservation score, co-expression, and regulatory networks for circRNA annotation and prioritization. CircAtlas can be accessed at http://circatlas.biols.ac.cn/.

摘要

现有的环状 RNA (circRNA) 数据库已成为转录组学的重要资源。然而,大多数数据库不适合深入挖掘候选 circRNA 优先级的信息。为了解决这个问题,我们整合了环状转录本集合,基于从六个脊椎动物物种的 19 个正常组织中收集的 1070 个 RNA-seq 样本,开发了 circAtlas 数据库。该数据库包含 1007087 个高度可靠的 circRNA,其中超过 81.3%的 circRNA 已被组装成全长序列。我们分析了它们的表达模式、保守性和功能注释。我们描述了一种新的多保守性评分、共表达和调控网络,用于 circRNA 的注释和优先级排序。circAtlas 可在 http://circatlas.biols.ac.cn/ 上访问。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/94a1/7187532/9e1c2642be38/13059_2020_2018_Fig1_HTML.jpg

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