Homotypic motifs from 5 databases in the promoters of 21 plant species

<strong>What is this about:</strong> This project encompasses multiple plant species, primarily employing tools like FIMO and PMET index to search for homotypic motifs in the promoters across various plant species. We selected five different sources of motifs: <strong>CIS-BP2</strong>, <strong>Franco-Zorrilla et al. 2014</strong>, <strong>Jaspar plants non redundant 2022</strong>, <strong>PlantTFDB</strong> and <strong>Plant Cistrome DB</strong>. Our research delves into an extensive analysis of gene expression regulatory elements, aiming to unravel the mechanisms of plant gene expression regulation. For this purpose, we have pre-calculated a vast amount of data in order to identify promoter patterns that consistently appear across different species. These promoter patterns potentially play fundamental and crucial regulatory roles in each species. <strong>How to use it:</strong> All data are prepared for PMET-Shiny app: https://github.com/duocang/PMET-Shiny-App. After downloading, all files are unzipped and put in the folder of <em><strong>data/indexing</strong></em> of PMET-Shiny.<strong>本项目内容：</strong>本项目涵盖多种植物物种，主要借助FIMO与PMET指数（PMET index）等工具，在不同植物物种的启动子区域中搜索同源型基序。我们选取了五种不同来源的基序：<strong>CIS-BP2</strong>、<strong>Franco-Zorrilla等人2014年研究</strong>、<strong>2022版非冗余植物Jaspar数据库</strong>、<strong>PlantTFDB</strong>以及<strong>Plant Cistrome DB</strong>。本研究针对基因表达调控元件展开深度分析，旨在揭示植物基因表达调控的内在机制。为此，我们预先计算了海量数据，以识别跨物种普遍存在的启动子模式；此类启动子模式可能在各物种中发挥基础性且至关重要的调控作用。<strong>使用方法：</strong>所有数据均已适配PMET-Shiny应用（PMET-Shiny app）：https://github.com/duocang/PMET-Shiny-App。下载完成后，请将所有文件解压并放置于PMET-Shiny的<em><strong>data/indexing</strong></em>文件夹中。