我们在这里提供了转录调控元件的REDfly(Fly调控元件数据库)数据库的最新描述,一种独特的资源,为果蝇和其他昆虫的基因组提供调控注释。调节昆虫基因表达-转录顺式调节模块的基因组序列(CRM,例如,“增强子”)和转录因子结合位点(TFBS)-目前尚未被任何其他主要数据库资源所整理。然而,这些序列的知识很重要,由于CRM在疾病和正常发育方面发挥着关键作用,表型变异,和进化。特征化的CRM还为基础和应用研究提供了有用的工具,包括开发控制昆虫的方法。REDfly,这是现有最详细的后生调控元素注释平台,包括超过40,000个经过实验验证的CRM和TFBS及其DNA序列,它们的相关基因,以及他们引导的表达模式。这里,我们简要描述了REDfly的内容和数据模型,强调自2020年以来实施的新功能。然后,我们提供了几个常见的REDfly搜索用例的插图介绍。
We provide here an updated description of the REDfly (Regulatory Element Database for Fly) database of transcriptional regulatory elements, a unique resource that provides regulatory annotation for the genome of Drosophila and other insects. The genomic sequences regulating insect gene expression-transcriptional cis-regulatory modules (CRMs, e.g., \"enhancers\") and transcription factor binding sites (TFBSs)-are not currently curated by any other major database resources. However, knowledge of such sequences is important, as CRMs play critical roles with respect to disease as well as normal development, phenotypic variation, and evolution. Characterized CRMs also provide useful tools for both basic and applied research, including developing methods for insect control. REDfly, which is the most detailed existing platform for metazoan regulatory-element annotation, includes over 40,000 experimentally verified CRMs and TFBSs along with their DNA sequences, their associated genes, and the expression patterns they direct. Here, we briefly describe REDfly\'s contents and data model, with an emphasis on the new features implemented since 2020. We then provide an illustrated walk-through of several common REDfly search use cases.