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Purification engineering technology research center of Sichuan Province Natural Medicine
四川省天然藥物分離純化工程技術(shù)研究中心

文獻(xiàn)

Xiang L ,Wang Y ,Shao W , et al.High-throughput profiling of chemical-induced gene expression across 93,644 perturbations[J].Nature Methods,2025,22(9):1-10.

本文來(lái)自：發(fā)布時(shí)間：2026-01-21

發(fā)表期刊：Nature Methods

發(fā)表時(shí)間：2025

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.

https://doi.org/10.1038/s41592-025-02781-5