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首页> 外文会议>German Conference on Bioinformatics >ConReg: Analysis and Visualization of Conserved Regulatory Networks in Eukaryotes
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ConReg: Analysis and Visualization of Conserved Regulatory Networks in Eukaryotes

机译：CONREG：真核生物中保守的监管网络的分析与可视化

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Transcription factors (TFs) play a fundamental role in cellular regulation by binding to promoter regions of target genes (TGs) in order to control their gene expression. TF-TG networks are widely used as representations of regulatory mechanisms, e.g. for modeling the cellular response to input signals and perturbations. As the experimental identification of regulatory interactions is time consuming and expensive, one tries to use knowledge from related species when studying an organism of interest. Here, we present ConReg, an interactive web application to store regulatory relations for various species and to investigate their level of conservation in related species. Currently, ConReg contains data for eight model organisms. The regulatory relations stored in publicly available databases cover only a small fraction both of the actual interactions and also of the regulatory relations described in the scientific literature. Therefore, we included regulatory relations extracted from PubMed and PubMedCentral using sophisticated text-mining approaches and from binding site predictions into ConReg. We applied ConReg for the investigation of conserved regulatory motifs in D. melanogaster. From the 471 regulatory relations in REDfly our system was able to identify 66 confirmed conserved regulations in at least one vertebrate model organism (H. sapiens, M. musculus, R. norve-gicus, D. rerio). The conserved network consists among others of the well studied motifs for eye-development and the pan-bilaterian kernel for heart specification, which are well-known examples for conserved regulatory relations between different organisms. ConReg is available at http://services.bio.ifi.lmu.de/ConReg/ and can be used to analyze and visualize regulatory networks and their conservation among eight model organisms. It also provides direct links to annotations including literature references to potentially conserved regulatory relations.
机译：转录因子（TFS）通过与靶基因（TGS）的启动子区域结合以控制其基因表达，在细胞调节中发挥基本作用。 TF-TG网络被广泛用作监管机制的表示，例如，用于对输入信号和扰动建模蜂窝响应。由于调节互动的实验识别是耗时和昂贵的，试图在研究感兴趣的生物时使用相关物种的知识。在这里，我们介绍互动网络申请，以存储各种物种的监管关系，并调查其相关物种的保护程度。目前，Conreg包含八种模型生物的数据。储存在公开数据库中的监管关系仅涵盖了科学文献中所述的实际互动和监管关系的小部分。因此，我们包括使用复杂的文本挖掘方法和与Conreg中的结合位点预测从PubMed和PubmedCentr中提取的监管关系。我们申请了CONREG在D. Melanogaster中调查了D. Melanogaster的保守监管。从471个Redfly中的监管关系，我们的系统能够在至少一个脊椎动物模型生物中识别66条确认的保守法规（H. sapiens，M. Musculus，R. Norve-Gicus，D.Rerio）。保守的网络包括良好的参与次开发主题和心脏规范的泛二合岩核中的其他内容等，这是众所周知的不同生物之间的保守监管关系的示例。 Conreg可在http://services.bio.ifi.lmu.de/conreg/提供，可用于分析和可视化八种模型生物之间的监管网络及其保护。它还提供与潜在保守监管关系的文献引用的直接链接。

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