Expression Atlas

The Expression Atlas provides information on gene expression patterns under different biological conditions such as a gene knock out, a plant treated with a compound, or in a particular organism part or cell. It includes both microarray and RNA-seq data. The data is re-analysed in-house to detect interesting expression patterns under the conditions of the original experiment. There are two components to the Expression Atlas, the Baseline Atlas and the Differential Atlas. The Baseline Atlas displays information about which gene products are present (and at what abundance) in "normal" conditions (e.g. tissue, cell type). It aims to answer questions such as "which genes are specifically expressed in human kidney?". This component of the Expression Atlas consists of highly-curated and quality-checked RNA-seq experiments from ArrayExpress. It has data for many different animal and plant species. New experiments are added as they become available. The Differential Atlas allows users to identify genes that are up- or down-regulated in a wide variety of different experimental conditions such as yeast mutants, cadmium treated plants, cystic fibrosis or the effect on gene expression of mind-body practice. Both microarray and RNA-seq experiments are included in the Differential Atlas. Experiments are selected from ArrayExpress and groups of samples are manually identified for comparison e.g. those with wild type genotype compared to those with a gene knock out. Each experiment is processed through our in-house differential expression statistical analysis pipeline to identify genes with a high probability of differential expression.

表达图谱提供了在不同生物条件下（如基因敲除、用化合物处理的植物、特定器官或细胞）的基因表达模式信息。它包含了微阵列和RNA-seq数据。数据在内部重新分析，以检测原始实验条件下的有趣表达模式。表达图谱分为两个部分：基线图谱和差异图谱。基线图谱展示了在“正常”条件下（例如组织、细胞类型）哪些基因产物存在（以及其丰度）。其旨在回答诸如“哪些基因在人类肾脏中特异性表达？”等问题。该图谱的组成部分由ArrayExpress的高质量、经过严格审查的RNA-seq实验组成，涵盖了多种动物和植物物种的数据。新实验在可用时添加。差异图谱允许用户识别在广泛不同的实验条件下（如酵母突变体、镉处理的植物、囊性纤维化或身心练习对基因表达的影响）上调或下调的基因。差异图谱中包括微阵列和RNA-seq实验。实验从ArrayExpress中选取，并通过手动识别样本组进行比较，例如野生型基因型与基因敲除型的比较。每个实验都通过我们内部的差异表达统计分析流程进行处理，以识别具有高差异表达概率的基因。