MarpolBase Expression: A Web-based, Comprehensive Platform for Visualization and Analysis of Transcriptomes in the Liverwort Marchantia polymorpha
MarpolBase Expression: A Web-based, Comprehensive Platform for Visualization and Analysis of Transcriptomes in the Liverwort Marchantia polymorpha
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MarpolBase Expression：基于网络的综合平台，用于地钱地钱转录组的可视化和分析
DOI：
10.1101/2022.06.03.494633
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发表时间：
2022
期刊：
影响因子：
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通讯作者：
Kawamura S
中科院分区：
文献类型：
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作者：
Kawamura S
地钱具有广泛的分子和遗传工具和资源，这些工具和资源已被广泛用于探索陆地植物的进化发育方面。虽然其多样的转录组数据正在迅速积累，但还没有广泛的用户友好的工具来利用这样的数据汇编并用最新的注释总结结果。在这里，我们开发了一套基于网络的工具，MarpolBase Expression（MBEX，https：//marchantia.info/mbex/），用户可以在其中可视化基因表达谱，识别差异表达基因，进行共表达和功能富集分析，并以各种便携式格式总结其综合输出。以油体生物成因为例，我们证明了MBEX产生的结果与已发表的实验证据一致，并揭示了这一过程中的一个新的转录网络。MBEX将促进对M中各种生物过程背后的遗传和功能网络的探索和发现。多态性和促进我们对陆地植物进化的理解。
The liverwortMarchantia polymorphais equipped with a wide range of molecular and genetic tools and resources that have led to its wide use to explore the evo-devo aspects of land plants. Although its diverse transcriptome data are rapidly accumulating, there is no extensive yet user-friendly tool to exploit such a compilation of data and to summarize results with the latest annotations. Here, we have developed a web-based suite of tools, MarpolBase Expression (MBEX, https://marchantia.info/mbex/), where users can visualize gene expression profiles, identify differentially expressed genes, perform co-expression and functional enrichment analyses and summarize their comprehensive output in various portable formats. Using oil body biogenesis as an example, we demonstrated that the results generated by MBEX were consistent with the published experimental evidence and also revealed a novel transcriptional network in this process. MBEX should facilitate the exploration and discovery of the genetic and functional networks behind various biological processes inM. polymorphaand promote our understanding of the evolution of land plants.