Protocol for isolating high-quality nuclei from FFPE pancreatic cancer sections and constructing sequencing libraries.

Authors

Huiheng Ning, Wei Zhou, Kang Chen, Qinhang Gao, Jieying Pan, Min-Min Chen

Published in

STAR protocols. Volume 7. Issue 4. Pages 104880. Oct 08, 2026. Epub Oct 08, 2026.

Abstract

Formalin-fixed paraffin-embedded (FFPE) tissues are archived resources for biomedical research but challenging for single-cell transcriptomic analysis. Here, we present a protocol for isolating high-quality nuclei from FFPE pancreatic cancer sections. We describe steps for deparaffinization, enzymatic digestion, nuclei purification, and library construction using the 10× Genomics Fixed RNA Profiling platform. This protocol enables transcriptomic profiling of archived clinical specimens at single-nucleus resolution. For complete details on the use and execution of this protocol, please refer to Chen et al.¹.

PMID:
42848517
Bibliographic data and abstract were imported from PubMed on 09 Oct 2026.

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