Unified molecular approach for spatial epigenome, transcriptome, and cell lineages

• 成果类型: Article
• 署名作者: Huang, Yung-Hsin; Belk, Julia A.; Zhang, Ruochi; Weiser, Natasha E.; Chiang, Zachary; Jones, Matthew G.; Mischel, Paul S.; Buenrostro, Jason D.; Chang, Howard Y.
• 署名单位: Stanford University; Stanford Medicine; Harvard University; Massachusetts Institute of Technology (MIT); Broad Institute; Harvard University; Harvard University; Massachusetts Institute of Technology (MIT); Broad Institute; Stanford Medicine; Stanford University; Stanford University; Stanford Medicine; Howard Hughes Medical Institute; Stanford University
• 刊物名称: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
• ISSN/ISSBN: 0027-8424; 1091-6490
• DOI: 10.1073/pnas.2424070122
• 发表日期: 2025-04-22
• 页码: e2424070122
• 关键词: spatial genomics; spatial multiomics; chromatin accessibility; cell lineages; chromatin; reveals; genome; atlas; seq

摘要

Spatial epigenomics and multiomics can provide fine-grained insights into cellular states but their widespread adoption is limited by the requirement for bespoke slides and capture chemistries for each data modality. Here, we present SPatial assay for Accessible chromatin, Cell lineages, and gene Expression with sequencing (SPACE-seq), a method that utilizes polyadenine-tailed epigenomic libraries to enable facile spatial multiomics using standard whole transcriptome reagents. Applying SPACE-seq to a human glioblastoma specimen, we reveal the state of the tumor microenvironment, extrachromosomal DNA copy numbers, and identify putative mitochondrial DNA variants.