93644次扰动中化学诱导基因表达的高通量分析，这一成果由成都中医药大学王栋团队经过不懈努力而取得。相关论文于2025年8月18日发表在《自然—方法学》杂志上。

在这篇论文中，研究组提出了一个化学诱导基因特征（CIGS）的广泛数据集，包括在暴露于13221种化合物的2种人类细胞系中，在93664次扰动中调节关键生物过程的3407个基因的表达模式。该数据集包含319045108个基因表达事件，通过两种高通量技术生成：先前记录的基于高通量测序的高通量筛选（HTS²）和新开发的高复用并行测序（HiMAP-seq）。

他们的研究结果表明，HiMAP-seq可以与RNA测序相媲美，但可以通过使用混合样本策略在一次测试中分析样品中两种基因的表达。该课题组研究人员进一步阐明了CIGS在阐明未注释的小分子（如光黄酮和2,4-二羟基苯甲醛）的作用机制以及识别扰动诱导的细胞状态（如抗铁凋亡的细胞状态）方面的效用。完整的数据集可在https://cigs.iomicscloud.com/公开访问。

附：英文原文

Title: High-throughput profiling of chemical-induced gene expression across 93,644 perturbations

Author: Xiang, Lei, Wang, Yumei, Shao, Wei, Li, Qingzhou, Yu, Xiankuo, Wei, Mingming, Gui, Yu, Li, Shengrong, Qin, Pan, Hu, Chao, Zhang, Guochen, Zhang, Xianwen, Wang, Jiawen, Li, Yingying, An, Jun, Luo, Yan, Liao, Yile, Deng, Jinghong, Tai, Xinran, Xu, Richard Y., Huang, Lijun, Guo, Dale, Zhang, Guanbin, Xie, Zhi, Deng, Yun, Xu, Junquan, Wang, Dong

Issue&Volume: 2025-08-18

Abstract: In this Resource, we present an extensive dataset of chemical-induced gene signatures (CIGS), encompassing expression patterns of 3,407 genes regulating key biological processes in 2 human cell lines exposed to 13,221 compounds across 93,664 perturbations. This dataset encompasses 319,045,108 gene expression events, generated through 2 high-throughput technologies: the previously documented high-throughput sequencing-based high-throughput screening (HTS2) and the newly developed highly multiplexed and parallel sequencing (HiMAP-seq). Our results show that HiMAP-seq is comparable to RNA sequencing, but can profile the expression of thousands of genes across thousands of samples in one single test by utilizing a pooled-sample strategy. We further illustrate CIGS’s utility in elucidating the mechanism of action of unannotated small molecules, like ligustroflavone and 2,4-dihydroxybenzaldehyde, and to identify perturbation-induced cell states, such as those resistant to ferroptosis. The full dataset is publicly accessible at https://cigs.iomicscloud.com/.

DOI: 10.1038/s41592-025-02781-5

Source: https://www.nature.com/articles/s41592-025-02781-5