RESEARCH

Deep learning of cross-species single cell landscapes identifies conserved regulatory programs underlying cell types

来源 :基础医学系    发布时间 :2022-10-17    浏览次数 :308

Abstract

Despite extensive efforts to generate and analyze reference genomes, genetic models to predict gene regulation and cell fate decisions are lacking for most species. Here, we generated whole-body single-cell transcriptomic landscapes of zebrafish, Drosophila and earthworm. We then integrated cell landscapes from eight representative metazoan species to study gene regulation across evolution. Using these uniformly constructed cross-species landscapes, we developed a deep-learning-based strategy, Nvwa, to predict gene expression and identify regulatory sequences at the single-cell level. We systematically compared cell-type-specific transcription factors to reveal conserved genetic regulation in vertebrates and invertebrates. Our work provides a valuable resource and offers a new strategy for studying regulatory grammar in diverse biological systems.

原文链接:Deep learning of cross-species single-cell landscapes identifies conserved regulatory programs underlying cell types | Nature Genetics