题 目：A tri-modal single-cell technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissues

主 讲：尉晓林 博士后

时 间：2024年7月1日（周一）下午14:00-15:00

地 点：学习书坊

嘉宾介绍：

尉晓林博士2012-2018年在北京大学攻读生物技术博士学位，从事开发高通量BAC文库双端测序技术以帮助基因组组装；2018至今在美国杜克大学从事博士后研究工作，从事高通量单细胞多组学测序技术的开发。

报告摘要：

The three-dimensional (3D) organization of cis-regulatory elements (CREs) is crucial for transcription. Current single-cell technologies can capture only two of three key modalities—transcriptome, epigenome, and 3D genome—from the same cells, limiting multi-modal data alignment without ground truth from identical cells. We introduce single-cell Hi-C with ATAC and RNA-seq (scHiCAR), which employs combinatory barcoding of mRNA and open chromatin along with chromosome conformation capture. scHiCAR allows simultaneous analysis of all three modalities from the same cells, and enriches CRE-associated long-range (>20kb) cis-interactions by 19.3-fold compared to leading single-cell 3D genome technology Dip-C. Applied to 1.62 million mouse frontal cortex cells and complemented with a deep-learning-based loop caller, scHiCAR precisely identifies cell-type-specific transcriptomes, CREs, and high-resolution CRE interactions across 22 cell types. Notably, scHiCAR outperforms existing methods in accurately identifying functional enhancers and annotating their distal target genes, offering a scalable and cost-effective approach for studying gene regulation in tissues.