High-throughput single nucleus total RNA sequencing of formalin-fixed paraffin-embedded (FFPE) tissues by snRandom-seq
Release date:
2023-04-25
Description:
Formalin-fixed paraffin-embedded (FFPE) tissues constitute a vast and valuable patient material bank. It is still challenging to achieve single cell/nucleus RNA (sc/snRNA) profile in FFPE tissues. Here, we developed a droplet-based snRNA sequencing technology (snRandom-seq) for FFPE tissues by capturing full-length total RNAs with random primers. snRandom-seq showed a minor doublet rate (0.3%), a much higher RNA coverage, and detected more non-coding RNAs and nascent RNAs, compared with state-of-art high-throughput scRNA-seq technologies. We used snRandom-seq to profile ~20,000 single nuclei from multiple FFPE mouse tissues. A median of >3,000 genes per nucleus was detected and 25 typical cell types were identified. Moreover, we applied snRandom-seq on a clinical FFPE human liver cancer specimen and revealed an interesting subpopulation of nuclei with high proliferative activity.
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Submitter: Wang Yongcheng / tianyuzhang@whu.edu.cn
Organization: First Affiliated Hospital, Zhejiang University
Submission date: 2022-12-27
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HRA003712.xlsx