Institute of Biomedical Sciences, Academia Sinica, Taipei, 115, Taiwan, R.O.C.
Institute of Biomedical Sciences, Academia Sinica, Taipei, 115, Taiwan, R.O.C..
Sci Rep. 2024 May 30;14(1):12454. doi: 10.1038/s41598-024-63269-4.
Housekeeping protein-coding genes are stably expressed genes in cells and tissues that are thought to be engaged in fundamental cellular biological functions. They are often utilized as normalization references in molecular biology research and are especially important in integrated bioinformatic investigations. Prior studies have examined human housekeeping protein-coding genes by analyzing various gene expression datasets. The inclusion of different tissue types significantly impacted the discovery of housekeeping genes. In this report, we investigated particularly individual human subject expression differences in protein-coding genes across different tissue types. We used GTEx V8 gene expression datasets obtained from more than 16,000 human normal tissue samples. Furthermore, the Gini index is utilized to investigate the expression variations of protein-coding genes between tissue and individual donor subjects. Housekeeping protein-coding genes found using Gini index profiles may vary depending on the tissue subtypes investigated, particularly given the diverse sample size collections across the GTEx tissue subtypes. We subsequently selected major tissues and identified subsets of housekeeping genes with stable expression levels among human donors within those tissues. In this work, we provide alternative sets of housekeeping protein-coding genes that show more consistent expression patterns in human subjects across major solid organs. Weblink: https://hpsv.ibms.sinica.edu.tw .
管家蛋白编码基因是细胞和组织中稳定表达的基因，被认为参与基本的细胞生物学功能。它们通常被用作分子生物学研究中的归一化参考，在综合生物信息学研究中尤为重要。先前的研究通过分析各种基因表达数据集来研究人类管家蛋白编码基因。纳入不同的组织类型对管家基因的发现有显著影响。在本报告中，我们特别研究了不同组织类型中个体人类受试者的蛋白编码基因表达差异。我们使用了来自 16000 多个人类正常组织样本的 GTEx V8 基因表达数据集。此外，基尼指数用于研究组织和个体供体之间蛋白编码基因的表达变化。使用基尼指数图谱发现的管家蛋白编码基因可能因所研究的组织亚型而异，特别是考虑到 GTEx 组织亚型的样本量收集存在多样性。我们随后选择了主要组织，并在这些组织内的人类供体中确定了具有稳定表达水平的管家基因子集。在这项工作中，我们提供了一组替代的管家蛋白编码基因，这些基因在主要实体器官中的人类受试者中表现出更一致的表达模式。网页链接：https://hpsv.ibms.sinica.edu.tw。
