Spatial transcriptome of FFPE sample by DBiT-seq

Here, we show that DBiT-seq (Deterministic barcoding in tissue) can be applied to FFPE samples, providing quality transcriptome information. We first studied the E10.5 mouse embryo tissue section with a 25 m pixel size chip and identified all the major anatomical structures. Then, we analyzed the three major components of mouse heart and circulatory system: aorta, atrium, and ventricle. Results show that major cell types in all above tissue types can be identified after integration with published scRNA-seq reference data. Spatial transcriptome of FFPE sample, including mosue embryo E10.5, adult mouse aorta, artrium and ventricle本研究证实，DBiT-seq（Deterministic barcoding in tissue，组织确定性条形码测序）可应用于FFPE（福尔马林固定石蜡包埋，Formalin-Fixed Paraffin-Embedded）样本，能够获取高质量转录组信息。本研究首先使用像素尺寸为25 μm的芯片处理小鼠E10.5胚胎组织切片，成功识别出所有主要解剖结构。随后，本研究分析了小鼠心脏与循环系统的三大主要组成部分：主动脉、心房与心室。研究结果表明，将其与已发表的scRNA-seq（single-cell RNA sequencing，单细胞RNA测序）参考数据集整合后，可识别上述所有组织类型中的主要细胞类群。本研究涉及的FFPE样本空间转录组涵盖小鼠E10.5胚胎组织、成年小鼠主动脉、心房及心室样本。